From 6cc5a7852fcadd563cf2ac3267b2d867e3f7f283 Mon Sep 17 00:00:00 2001 From: "Mark A. Miller" Date: Mon, 12 Jun 2023 11:50:47 -0400 Subject: [PATCH] regen --- examples/output/README.md | 46 + project/json/nmdc_submission_schema.json | 119083 +++++++++++++++ .../nmdc_submission_schema.schema.json | 139 +- project/owl/nmdc_submission_schema.owl.ttl | 18584 +++ .../datamodel/nmdc_submission_schema.py | 18325 +++ .../schema/nmdc_submission_schema.yaml | 46663 ++++++ 6 files changed, 202747 insertions(+), 93 deletions(-) create mode 100644 project/json/nmdc_submission_schema.json create mode 100644 project/owl/nmdc_submission_schema.owl.ttl create mode 100644 src/nmdc_submission_schema/datamodel/nmdc_submission_schema.py create mode 100644 src/nmdc_submission_schema/schema/nmdc_submission_schema.yaml diff --git a/examples/output/README.md b/examples/output/README.md index a20fb776..8eddbbfd 100644 --- a/examples/output/README.md +++ b/examples/output/README.md @@ -1435,6 +1435,21 @@ jgi_mg_data: proposal_dna: xxx samp_name: xxx +``` +## SampleData-emsl_data-capital-sample_type +### Input +```yaml +emsl_data: +- analysis_type: + - metagenomics + - metatranscriptomics + emsl_store_temp: -80 + project_id: xxx + replicate_number: 5 + samp_name: xxx + sample_shipped: 100 units + sample_type: Water_extract_soil + ``` ## SampleData-jgi_mg_data-missing-dna_cont_type ### Input @@ -1672,6 +1687,21 @@ jgi_mt_data: samp_name: sample name source_mat_id: MPI:012345 +``` +## SampleData-emsl_data-string-replicate_number +### Input +```yaml +emsl_data: +- analysis_type: + - metagenomics + - metatranscriptomics + emsl_store_temp: -80 + project_id: xxx + replicate_number: hello + samp_name: xxx + sample_shipped: 100 units + sample_type: soil + ``` ## SampleData-water-data-broad-term-only ### Input @@ -2563,3 +2593,19 @@ water_data: specific_ecosystem: Unclassified ``` +## SampleData-emsl_data-string-technical_reps +### Input +```yaml +emsl_data: +- analysis_type: + - metagenomics + - metatranscriptomics + emsl_store_temp: -80 + project_id: xxx + replicate_number: 5 + samp_name: xxx + sample_shipped: 100 units + sample_type: water_extract_soil + technical_reps: turkey_sub + +``` diff --git a/project/json/nmdc_submission_schema.json b/project/json/nmdc_submission_schema.json new file mode 100644 index 00000000..2330a33a --- /dev/null +++ b/project/json/nmdc_submission_schema.json @@ -0,0 +1,119083 @@ +{ + "name": "nmdc_submission_schema", + "description": "Schema for creating Data Harmonizer interfaces for biosamples based on MIxS and other standards", + "id": "https://example.com/nmdc_submission_schema", + "version": "0.0.0", + "prefixes": { + "UO": { + "prefix_prefix": "UO", + "prefix_reference": "http://purl.obolibrary.org/obo/UO_" + }, + "qud": { + "prefix_prefix": "qud", + "prefix_reference": "http://qudt.org/1.1/schema/qudt#" + }, + "xsd": { + "prefix_prefix": "xsd", + "prefix_reference": "http://www.w3.org/2001/XMLSchema#" + }, + "nmdc_sub_schema": { + "prefix_prefix": "nmdc_sub_schema", + "prefix_reference": "https://example.com/nmdc_sub_schema/" + }, + "linkml": { + "prefix_prefix": "linkml", + "prefix_reference": "https://w3id.org/linkml/" + }, + "shex": { + "prefix_prefix": "shex", + "prefix_reference": "http://www.w3.org/ns/shex#" + }, + "schema": { + "prefix_prefix": "schema", + "prefix_reference": "http://schema.org/" + }, + "EFO": { + "prefix_prefix": "EFO", + "prefix_reference": "http://identifiers.org/efo/" + }, + "ISA": { + "prefix_prefix": "ISA", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "NCIT": { + "prefix_prefix": "NCIT", + "prefix_reference": "http://purl.obolibrary.org/obo/NCIT_" + }, + "OBI": { + "prefix_prefix": "OBI", + "prefix_reference": "http://purl.obolibrary.org/obo/OBI_" + }, + "bare": { + "prefix_prefix": "bare", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "nmdc": { + "prefix_prefix": "nmdc", + "prefix_reference": "https://w3id.org/nmdc/" + }, + "nmdc_yaml": { + "prefix_prefix": "nmdc_yaml", + "prefix_reference": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/" + }, + "prov": { + "prefix_prefix": "prov", + "prefix_reference": "http://www.w3.org/ns/prov#" + }, + "rdf": { + "prefix_prefix": "rdf", + "prefix_reference": "http://www.w3.org/1999/02/22-rdf-syntax-ns#" + }, + "rdfs": { + "prefix_prefix": "rdfs", + "prefix_reference": "http://www.w3.org/2000/01/rdf-schema#" + }, + "skos": { + "prefix_prefix": "skos", + "prefix_reference": "http://www.w3.org/2004/02/skos/core#" + }, + "NCBITaxon": { + "prefix_prefix": "NCBITaxon", + "prefix_reference": "http://purl.obolibrary.org/obo/NCBITaxon_" + }, + "jgi": { + "prefix_prefix": "jgi", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "dcterms": { + "prefix_prefix": "dcterms", + "prefix_reference": "http://purl.org/dc/terms/" + }, + "KEGG.COMPOUND": { + "prefix_prefix": "KEGG.COMPOUND", + "prefix_reference": "http://identifiers.org/kegg.compound/" + }, + "UniProtKB": { + "prefix_prefix": "UniProtKB", + "prefix_reference": "https://identifiers.org/uniprot/" + }, + "biolink": { + "prefix_prefix": "biolink", + "prefix_reference": "https://w3id.org/biolink/vocab/" + }, + "gtpo": { + "prefix_prefix": "gtpo", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "sio": { + "prefix_prefix": "sio", + "prefix_reference": "http://semanticscience.org/resource/SIO_" + }, + "wgs84": { + "prefix_prefix": "wgs84", + "prefix_reference": "http://www.w3.org/2003/01/geo/wgs84_pos#" + }, + "GOLD": { + "prefix_prefix": "GOLD", + "prefix_reference": "http://identifiers.org/gold/" + }, + "CHEBI": { + "prefix_prefix": "CHEBI", + "prefix_reference": "http://purl.obolibrary.org/obo/CHEBI_" + }, + "CHMO": { + "prefix_prefix": "CHMO", + "prefix_reference": "http://purl.obolibrary.org/obo/CHMO_" + }, + "MIXS": { + "prefix_prefix": "MIXS", + "prefix_reference": "https://w3id.org/mixs/" + }, + "MIXS_yaml": { + "prefix_prefix": "MIXS_yaml", + "prefix_reference": "https://raw.githubusercontent.com/microbiomedata/mixs/main/model/schema/" + }, + "COG": { + "prefix_prefix": "COG", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "EC": { + "prefix_prefix": "EC", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "GO": { + "prefix_prefix": "GO", + "prefix_reference": "http://purl.obolibrary.org/obo/GO_" + }, + "KEGG.ORTHOLOGY": { + "prefix_prefix": "KEGG.ORTHOLOGY", + "prefix_reference": "http://identifiers.org/kegg.orthology/" + }, + "KEGG.REACTION": { + "prefix_prefix": "KEGG.REACTION", + "prefix_reference": "http://identifiers.org/kegg.reaction/" + }, + "KEGG_PATHWAY": { + "prefix_prefix": "KEGG_PATHWAY", + "prefix_reference": "http://identifiers.org/kegg.pathway/" + }, + "MetaCyc": { + "prefix_prefix": "MetaCyc", + "prefix_reference": "https://identifiers.org/metacyc.reaction/" + }, + "MetaNetX": { + "prefix_prefix": "MetaNetX", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "RHEA": { + "prefix_prefix": "RHEA", + "prefix_reference": "http://identifiers.org/rhea/" + }, + "RetroRules": { + "prefix_prefix": "RetroRules", + "prefix_reference": "https://unknown.to.linter.org/" + }, + "SEED": { + "prefix_prefix": "SEED", + "prefix_reference": "http://identifiers.org/seed/" + } + }, + "default_prefix": "nmdc_sub_schema", + "default_range": "string", + "subsets": { + "sample subset": { + "name": "sample subset", + "description": "Subset consisting of entities linked to the processing of samples. Currently, this subset consists of study, omics process, and biosample.", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "data object subset": { + "name": "data object subset", + "description": "Subset consisting of the data objects that either inputs or outputs of processes or workflows.", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "workflow subset": { + "name": "workflow subset", + "description": "Subset consisting of just the workflow execution activities", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "environment": { + "name": "environment", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "investigation": { + "name": "investigation", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "nucleic acid sequence source": { + "name": "nucleic acid sequence source", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "sequencing": { + "name": "sequencing", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "mixs_environmental_triad": { + "name": "mixs_environmental_triad", + "title": "MIxS Environmental Triad", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "mixs extension": { + "name": "mixs extension", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "checklist": { + "name": "checklist", + "description": "A MIxS checklist. These can be combined with packages", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "package": { + "name": "package", + "description": "A MIxS package. These can be combined with checklists", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "checklist_package_combination": { + "name": "checklist_package_combination", + "description": "A combination of a checklist and a package", + "from_schema": "https://example.com/nmdc_submission_schema" + } + }, + "types": { + "unit": { + "name": "unit", + "description": "a string representation of a unit", + "notes": [ + "why isn't this picked up from the nmdc.yaml import?" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "mappings": [ + "qud:Unit", + "UO:0000000" + ], + "base": "str", + "uri": "xsd:string" + }, + "decimal degree": { + "name": "decimal degree", + "description": "a float representation of a degree of rotation", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "float", + "uri": "xsd:decimal" + }, + "language code": { + "name": "language code", + "description": "a string representation of a language", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "str", + "uri": "xsd:language" + }, + "string": { + "name": "string", + "description": "A character string", + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Text" + ], + "base": "str", + "uri": "xsd:string" + }, + "integer": { + "name": "integer", + "description": "An integer", + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Integer" + ], + "base": "int", + "uri": "xsd:integer" + }, + "boolean": { + "name": "boolean", + "description": "A binary (true or false) value", + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Boolean" + ], + "base": "Bool", + "uri": "xsd:boolean", + "repr": "bool" + }, + "float": { + "name": "float", + "description": "A real number that conforms to the xsd:float specification", + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Float" + ], + "base": "float", + "uri": "xsd:float" + }, + "double": { + "name": "double", + "description": "A real number that conforms to the xsd:double specification", + "from_schema": "https://example.com/nmdc_submission_schema", + "close_mappings": [ + "schema:Float" + ], + "base": "float", + "uri": "xsd:double" + }, + "decimal": { + "name": "decimal", + "description": "A real number with arbitrary precision that conforms to the xsd:decimal specification", + "from_schema": "https://example.com/nmdc_submission_schema", + "broad_mappings": [ + "schema:Number" + ], + "base": "Decimal", + "uri": "xsd:decimal" + }, + "time": { + "name": "time", + "description": "A time object represents a (local) time of day, independent of any particular day", + "notes": [ + "URI is dateTime because OWL reasoners do not work with straight date or time" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Time" + ], + "base": "XSDTime", + "uri": "xsd:dateTime", + "repr": "str" + }, + "date": { + "name": "date", + "description": "a date (year, month and day) in an idealized calendar", + "notes": [ + "URI is dateTime because OWL reasoners don't work with straight date or time" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:Date" + ], + "base": "XSDDate", + "uri": "xsd:date", + "repr": "str" + }, + "datetime": { + "name": "datetime", + "description": "The combination of a date and time", + "from_schema": "https://example.com/nmdc_submission_schema", + "exact_mappings": [ + "schema:DateTime" + ], + "base": "XSDDateTime", + "uri": "xsd:dateTime", + "repr": "str" + }, + "date_or_datetime": { + "name": "date_or_datetime", + "description": "Either a date or a datetime", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "str", + "uri": "linkml:DateOrDatetime", + "repr": "str" + }, + "uriorcurie": { + "name": "uriorcurie", + "description": "a URI or a CURIE", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "URIorCURIE", + "uri": "xsd:anyURI", + "repr": "str" + }, + "curie": { + "name": "curie", + "conforms_to": "https://www.w3.org/TR/curie/", + "description": "a compact URI", + "comments": [ + "in RDF serializations this MUST be expanded to a URI", + "in non-RDF serializations MAY be serialized as the compact representation" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "Curie", + "uri": "xsd:string", + "repr": "str" + }, + "uri": { + "name": "uri", + "conforms_to": "https://www.ietf.org/rfc/rfc3987.txt", + "description": "a complete URI", + "comments": [ + "in RDF serializations a slot with range of uri is treated as a literal or type xsd:anyURI unless it is an identifier or a reference to an identifier, in which case it is translated directly to a node" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "close_mappings": [ + "schema:URL" + ], + "base": "URI", + "uri": "xsd:anyURI", + "repr": "str" + }, + "ncname": { + "name": "ncname", + "description": "Prefix part of CURIE", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "NCName", + "uri": "xsd:string", + "repr": "str" + }, + "objectidentifier": { + "name": "objectidentifier", + "description": "A URI or CURIE that represents an object in the model.", + "comments": [ + "Used for inheritence and type checking" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "ElementIdentifier", + "uri": "shex:iri", + "repr": "str" + }, + "nodeidentifier": { + "name": "nodeidentifier", + "description": "A URI, CURIE or BNODE that represents a node in a model.", + "from_schema": "https://example.com/nmdc_submission_schema", + "base": "NodeIdentifier", + "uri": "shex:nonLiteral", + "repr": "str" + } + }, + "enums": { + "AnalysisTypeEnum": { + "name": "AnalysisTypeEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "metabolomics": { + "text": "metabolomics", + "description": "placeholder PV descr" + }, + "metagenomics": { + "text": "metagenomics", + "description": "placeholder PV descr" + }, + "metaproteomics": { + "text": "metaproteomics", + "description": "placeholder PV descr" + }, + "metatranscriptomics": { + "text": "metatranscriptomics", + "description": "placeholder PV descr" + }, + "natural organic matter": { + "text": "natural organic matter", + "description": "placeholder PV descr" + } + } + }, + "BioticRelationshipEnum": { + "name": "BioticRelationshipEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "commensalism": { + "text": "commensalism", + "description": "placeholder PV descr", + "annotations": { + "sntc_name": { + "tag": "sntc_name", + "value": "samp_biotic_relationship" + } + }, + "notes": [ + "biotic_relationship_enum: free living", + "parasitism", + "commensalism", + "symbiotic", + "mutualism" + ], + "see_also": [ + "https://genomicsstandardsconsortium.github.io/mixs/biotic_relationship_enum/" + ] + }, + "free living": { + "text": "free living", + "description": "placeholder PV descr" + }, + "mutualism": { + "text": "mutualism", + "description": "placeholder PV descr" + }, + "parasitism": { + "text": "parasitism", + "description": "placeholder PV descr" + }, + "symbiotic": { + "text": "symbiotic", + "description": "placeholder enum descr" + } + } + }, + "JgiContTypeEnum": { + "name": "JgiContTypeEnum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "plate": { + "text": "plate" + }, + "tube": { + "text": "tube" + } + } + }, + "DnaSampleFormatEnum": { + "name": "DnaSampleFormatEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "10 mM Tris-HCl": { + "text": "10 mM Tris-HCl", + "description": "placeholder PV descr" + }, + "DNAStable": { + "text": "DNAStable", + "description": "placeholder PV descr" + }, + "Ethanol": { + "text": "Ethanol", + "description": "placeholder PV descr" + }, + "Low EDTA TE": { + "text": "Low EDTA TE", + "description": "placeholder PV descr" + }, + "MDA reaction buffer": { + "text": "MDA reaction buffer", + "description": "placeholder PV descr" + }, + "PBS": { + "text": "PBS", + "description": "placeholder PV descr" + }, + "Pellet": { + "text": "Pellet", + "description": "placeholder PV descr" + }, + "RNAStable": { + "text": "RNAStable", + "description": "placeholder PV descr" + }, + "TE": { + "text": "TE", + "description": "placeholder PV descr" + }, + "Water": { + "text": "Water", + "description": "placeholder PV descr" + } + } + }, + "EcosystemCategoryEnum": { + "name": "EcosystemCategoryEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Terrestrial": { + "text": "Terrestrial", + "description": "placeholder PV descr", + "see_also": [ + "https://github.com/microbiomedata/sheets_and_friends/issues/22" + ] + } + } + }, + "EcosystemEnum": { + "name": "EcosystemEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Environmental": { + "text": "Environmental", + "description": "placeholder PV descr" + } + } + }, + "EcosystemSubtypeEnum": { + "name": "EcosystemSubtypeEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Biocrust": { + "text": "Biocrust", + "description": "placeholder PV descr" + }, + "Biofilm": { + "text": "Biofilm", + "description": "placeholder PV descr" + }, + "Bulk soil": { + "text": "Bulk soil", + "description": "placeholder PV descr" + }, + "Clay": { + "text": "Clay", + "description": "placeholder PV descr" + }, + "Floodplain": { + "text": "Floodplain", + "description": "placeholder PV descr" + }, + "Fossil": { + "text": "Fossil", + "description": "placeholder PV descr" + }, + "Glacier": { + "text": "Glacier", + "description": "placeholder PV descr" + }, + "Loam": { + "text": "Loam", + "description": "placeholder PV descr" + }, + "Mineral horizon": { + "text": "Mineral horizon", + "description": "placeholder PV descr" + }, + "Nature reserve": { + "text": "Nature reserve", + "description": "placeholder PV descr" + }, + "Organic layer": { + "text": "Organic layer", + "description": "placeholder PV descr" + }, + "Paddy field/soil": { + "text": "Paddy field/soil", + "description": "placeholder PV descr" + }, + "Pasture": { + "text": "Pasture", + "description": "placeholder PV descr" + }, + "Peat": { + "text": "Peat", + "description": "placeholder PV descr" + }, + "Ranch": { + "text": "Ranch", + "description": "placeholder PV descr" + }, + "Sand": { + "text": "Sand", + "description": "placeholder PV descr" + }, + "Silt": { + "text": "Silt", + "description": "placeholder PV descr" + }, + "Soil crust": { + "text": "Soil crust", + "description": "placeholder PV descr" + }, + "Unclassified": { + "text": "Unclassified", + "description": "placeholder PV descr" + }, + "Watershed": { + "text": "Watershed", + "description": "placeholder PV descr" + }, + "Wetlands": { + "text": "Wetlands", + "description": "placeholder PV descr" + } + } + }, + "EcosystemTypeEnum": { + "name": "EcosystemTypeEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Soil": { + "text": "Soil", + "description": "placeholder PV descr" + } + } + }, + "EnvPackageEnum": { + "name": "EnvPackageEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "soil": { + "text": "soil", + "description": "placeholder PV descr", + "notes": [ + "I don't think this is a MIxS term anymore, so it make sense to define it here" + ] + } + } + }, + "GrowthFacilEnum": { + "name": "GrowthFacilEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "experimental_garden": { + "text": "experimental_garden", + "description": "placeholder PV descr", + "annotations": { + "sntc_name": { + "tag": "sntc_name", + "value": "growth_facility" + } + }, + "notes": [ + "string range according to MIxS" + ], + "see_also": [ + "https://genomicsstandardsconsortium.github.io/mixs/growth_facil/" + ] + }, + "field": { + "text": "field", + "description": "placeholder PV descr" + }, + "field_incubation": { + "text": "field_incubation", + "description": "placeholder PV descr" + }, + "glasshouse": { + "text": "glasshouse", + "description": "placeholder PV descr" + }, + "greenhouse": { + "text": "greenhouse", + "description": "placeholder PV descr" + }, + "growth_chamber": { + "text": "growth_chamber", + "description": "placeholder PV descr" + }, + "lab_incubation": { + "text": "lab_incubation", + "description": "placeholder PV descr" + }, + "open_top_chamber": { + "text": "open_top_chamber", + "description": "placeholder PV descr" + }, + "other": { + "text": "other", + "description": "placeholder PV descr" + } + } + }, + "RelToOxygenEnum": { + "name": "RelToOxygenEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "aerobe": { + "text": "aerobe", + "description": "placeholder PV descr", + "annotations": { + "sntc_name": { + "tag": "sntc_name", + "value": "oxygen_relationship" + } + }, + "see_also": [ + "https://genomicsstandardsconsortium.github.io/mixs/rel_to_oxygen_enum/" + ] + }, + "anaerobe": { + "text": "anaerobe", + "description": "placeholder PV descr" + }, + "facultative": { + "text": "facultative", + "description": "placeholder PV descr" + }, + "microaerophilic": { + "text": "microaerophilic", + "description": "placeholder PV descr" + }, + "microanaerobe": { + "text": "microanaerobe", + "description": "placeholder PV descr" + }, + "obligate aerobe": { + "text": "obligate aerobe", + "description": "placeholder PV descr" + }, + "obligate anaerobe": { + "text": "obligate anaerobe", + "description": "placeholder PV descr" + } + } + }, + "RnaSampleFormatEnum": { + "name": "RnaSampleFormatEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "10 mM Tris-HCl": { + "text": "10 mM Tris-HCl", + "description": "placeholder PV descr" + }, + "DNAStable": { + "text": "DNAStable", + "description": "placeholder PV descr" + }, + "Ethanol": { + "text": "Ethanol", + "description": "placeholder PV descr" + }, + "Low EDTA TE": { + "text": "Low EDTA TE", + "description": "placeholder PV descr" + }, + "MDA reaction buffer": { + "text": "MDA reaction buffer", + "description": "placeholder PV descr" + }, + "PBS": { + "text": "PBS", + "description": "placeholder PV descr" + }, + "Pellet": { + "text": "Pellet", + "description": "placeholder PV descr" + }, + "RNAStable": { + "text": "RNAStable", + "description": "placeholder PV descr" + }, + "TE": { + "text": "TE", + "description": "placeholder PV descr" + }, + "Water": { + "text": "Water", + "description": "placeholder PV descr" + } + } + }, + "SampleTypeEnum": { + "name": "SampleTypeEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "soil": { + "text": "soil", + "description": "placeholder PV descr" + }, + "water_extract_soil": { + "text": "water_extract_soil", + "description": "placeholder PV descr" + } + } + }, + "SpecificEcosystemEnum": { + "name": "SpecificEcosystemEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Agricultural": { + "text": "Agricultural", + "description": "placeholder PV descr" + }, + "Agricultural land": { + "text": "Agricultural land", + "description": "placeholder PV descr" + }, + "Agricultural soil": { + "text": "Agricultural soil", + "description": "placeholder PV descr" + }, + "Alpine": { + "text": "Alpine", + "description": "placeholder PV descr" + }, + "Bog": { + "text": "Bog", + "description": "placeholder PV descr" + }, + "Boreal forest": { + "text": "Boreal forest", + "description": "placeholder PV descr" + }, + "Contaminated": { + "text": "Contaminated", + "description": "placeholder PV descr" + }, + "Desert": { + "text": "Desert", + "description": "placeholder PV descr" + }, + "Farm": { + "text": "Farm", + "description": "placeholder PV descr" + }, + "Forest soil": { + "text": "Forest soil", + "description": "placeholder PV descr" + }, + "Forest Soil": { + "text": "Forest Soil", + "description": "placeholder PV descr" + }, + "Grasslands": { + "text": "Grasslands", + "description": "placeholder PV descr" + }, + "Meadow": { + "text": "Meadow", + "description": "placeholder PV descr" + }, + "Mine": { + "text": "Mine", + "description": "placeholder PV descr" + }, + "Mine drainage": { + "text": "Mine drainage", + "description": "placeholder PV descr" + }, + "Oil-contaminated": { + "text": "Oil-contaminated", + "description": "placeholder PV descr" + }, + "Orchard soil": { + "text": "Orchard soil", + "description": "placeholder PV descr" + }, + "Permafrost": { + "text": "Permafrost", + "description": "placeholder PV descr" + }, + "Riparian soil": { + "text": "Riparian soil", + "description": "placeholder PV descr" + }, + "River": { + "text": "River", + "description": "placeholder PV descr" + }, + "Shrubland": { + "text": "Shrubland", + "description": "placeholder PV descr" + }, + "Tropical rainforest": { + "text": "Tropical rainforest", + "description": "placeholder PV descr" + }, + "Unclassified": { + "text": "Unclassified", + "description": "placeholder PV descr" + }, + "Uranium contaminated": { + "text": "Uranium contaminated", + "description": "placeholder PV descr" + } + } + }, + "StoreCondEnum": { + "name": "StoreCondEnum", + "description": "placeholder enum descr", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "fresh": { + "text": "fresh", + "description": "placeholder PV descr", + "annotations": { + "sntc_name": { + "tag": "sntc_name", + "value": "storage_condt" + } + }, + "notes": [ + "see samp_store_dur, samp_store_loc, samp_store_temp and store_cond (which takes a string range according to mixs-source)." + ] + }, + "frozen": { + "text": "frozen", + "description": "placeholder PV descr" + }, + "lyophilized": { + "text": "lyophilized", + "description": "placeholder PV descr" + }, + "other": { + "text": "other", + "description": "placeholder PV descr" + } + } + }, + "YesNoEnum": { + "name": "YesNoEnum", + "description": "replaces DnaDnaseEnum and DnaseRnaEnum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "no": { + "text": "no" + }, + "yes": { + "text": "yes" + } + } + }, + "EnvBroadScaleSoilEnum": { + "name": "EnvBroadScaleSoilEnum", + "description": "placeholder enum descr, DO NOT SORT", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "arid biome [ENVO:01001838]": { + "text": "arid biome [ENVO:01001838]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "subalpine biome [ENVO:01001837]": { + "text": "subalpine biome [ENVO:01001837]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "montane biome [ENVO:01001836]": { + "text": "montane biome [ENVO:01001836]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__montane savanna biome [ENVO:01000223]": { + "text": "__montane savanna biome [ENVO:01000223]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__montane shrubland biome [ENVO:01000216]": { + "text": "__montane shrubland biome [ENVO:01000216]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "alpine biome [ENVO:01001835]": { + "text": "alpine biome [ENVO:01001835]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__alpine tundra biome [ENVO:01001505]": { + "text": "__alpine tundra biome [ENVO:01001505]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "subpolar biome [ENVO:01001834]": { + "text": "subpolar biome [ENVO:01001834]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "subtropical biome [ENVO:01001832]": { + "text": "subtropical biome [ENVO:01001832]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__mediterranean biome [ENVO:01001833]": { + "text": "__mediterranean biome [ENVO:01001833]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____mediterranean savanna biome [ENVO:01000229]": { + "text": "____mediterranean savanna biome [ENVO:01000229]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____mediterranean shrubland biome [ENVO:01000217]": { + "text": "____mediterranean shrubland biome [ENVO:01000217]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____mediterranean woodland biome [ENVO:01000208]": { + "text": "____mediterranean woodland biome [ENVO:01000208]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__subtropical woodland biome [ENVO:01000222]": { + "text": "__subtropical woodland biome [ENVO:01000222]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__subtropical shrubland biome [ENVO:01000213]": { + "text": "__subtropical shrubland biome [ENVO:01000213]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__subtropical savanna biome [ENVO:01000187]": { + "text": "__subtropical savanna biome [ENVO:01000187]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "temperate biome [ENVO:01001831]": { + "text": "temperate biome [ENVO:01001831]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__temperate woodland biome [ENVO:01000221]": { + "text": "__temperate woodland biome [ENVO:01000221]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__temperate shrubland biome [ENVO:01000215]": { + "text": "__temperate shrubland biome [ENVO:01000215]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__temperate savanna biome [ENVO:01000189]": { + "text": "__temperate savanna biome [ENVO:01000189]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "tropical biome [ENVO:01001830]": { + "text": "tropical biome [ENVO:01001830]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__tropical woodland biome [ENVO:01000220]": { + "text": "__tropical woodland biome [ENVO:01000220]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__tropical shrubland biome [ENVO:01000214]": { + "text": "__tropical shrubland biome [ENVO:01000214]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__tropical savanna biome [ENVO:01000188]": { + "text": "__tropical savanna biome [ENVO:01000188]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "polar biome [ENVO:01000339]": { + "text": "polar biome [ENVO:01000339]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "terrestrial biome [ENVO:00000446]": { + "text": "terrestrial biome [ENVO:00000446]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__anthropogenic terrestrial biome [ENVO:01000219]": { + "text": "__anthropogenic terrestrial biome [ENVO:01000219]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____dense settlement biome [ENVO:01000248]": { + "text": "____dense settlement biome [ENVO:01000248]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______urban biome [ENVO:01000249]": { + "text": "______urban biome [ENVO:01000249]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____rangeland biome [ENVO:01000247]": { + "text": "____rangeland biome [ENVO:01000247]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____village biome [ENVO:01000246]": { + "text": "____village biome [ENVO:01000246]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__mangrove biome [ENVO:01000181]": { + "text": "__mangrove biome [ENVO:01000181]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__tundra biome [ENVO:01000180]": { + "text": "__tundra biome [ENVO:01000180]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____alpine tundra biome [ENVO:01001505]": { + "text": "____alpine tundra biome [ENVO:01001505]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__shrubland biome [ENVO:01000176]": { + "text": "__shrubland biome [ENVO:01000176]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____tidal mangrove shrubland [ENVO:01001369]": { + "text": "____tidal mangrove shrubland [ENVO:01001369]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____xeric shrubland biome [ENVO:01000218]": { + "text": "____xeric shrubland biome [ENVO:01000218]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____montane shrubland biome [ENVO:01000216]": { + "text": "____montane shrubland biome [ENVO:01000216]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____temperate shrubland biome [ENVO:01000215]": { + "text": "____temperate shrubland biome [ENVO:01000215]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____tropical shrubland biome [ENVO:01000214]": { + "text": "____tropical shrubland biome [ENVO:01000214]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____subtropical shrubland biome [ENVO:01000213]": { + "text": "____subtropical shrubland biome [ENVO:01000213]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______mediterranean shrubland biome [ENVO:01000217]": { + "text": "______mediterranean shrubland biome [ENVO:01000217]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__woodland biome [ENVO:01000175]": { + "text": "__woodland biome [ENVO:01000175]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____subtropical woodland biome [ENVO:01000222]": { + "text": "____subtropical woodland biome [ENVO:01000222]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______mediterranean woodland biome [ENVO:01000208]": { + "text": "______mediterranean woodland biome [ENVO:01000208]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____temperate woodland biome [ENVO:01000221]": { + "text": "____temperate woodland biome [ENVO:01000221]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____tropical woodland biome [ENVO:01000220]": { + "text": "____tropical woodland biome [ENVO:01000220]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____savanna biome [ENVO:01000178]": { + "text": "____savanna biome [ENVO:01000178]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______montane savanna biome [ENVO:01000223]": { + "text": "______montane savanna biome [ENVO:01000223]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______flooded savanna biome [ENVO:01000190]": { + "text": "______flooded savanna biome [ENVO:01000190]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______temperate savanna biome [ENVO:01000189]": { + "text": "______temperate savanna biome [ENVO:01000189]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______tropical savanna biome [ENVO:01000188]": { + "text": "______tropical savanna biome [ENVO:01000188]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______subtropical savanna biome [ENVO:01000187]": { + "text": "______subtropical savanna biome [ENVO:01000187]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________mediterranean savanna biome [ENVO:01000229]": { + "text": "________mediterranean savanna biome [ENVO:01000229]", + "description": "placeholder PV descr, DO NOT SORT" + } + } + }, + "EnvMediumSoilEnum": { + "name": "EnvMediumSoilEnum", + "description": "placeholder enum descr, DO NOT SORT", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "pathogen-suppressive soil [ENVO:03600036]": { + "text": "pathogen-suppressive soil [ENVO:03600036]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "mangrove biome soil [ENVO:02000138]": { + "text": "mangrove biome soil [ENVO:02000138]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "surface soil [ENVO:02000059]": { + "text": "surface soil [ENVO:02000059]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "frost-susceptible soil [ENVO:01001638]": { + "text": "frost-susceptible soil [ENVO:01001638]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "bare soil [ENVO:01001616]": { + "text": "bare soil [ENVO:01001616]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "frozen soil [ENVO:01001526]": { + "text": "frozen soil [ENVO:01001526]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__friable-frozen soil [ENVO:01001528]": { + "text": "__friable-frozen soil [ENVO:01001528]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__plastic-frozen soil [ENVO:01001527]": { + "text": "__plastic-frozen soil [ENVO:01001527]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__hard-frozen soil [ENVO:01001525]": { + "text": "__hard-frozen soil [ENVO:01001525]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__frozen compost soil [ENVO:00005765]": { + "text": "__frozen compost soil [ENVO:00005765]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__cryosol [ENVO:00002236]": { + "text": "__cryosol [ENVO:00002236]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "ultisol [ENVO:01001397]": { + "text": "ultisol [ENVO:01001397]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__acrisol [ENVO:00002234]": { + "text": "__acrisol [ENVO:00002234]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "acidic soil [ENVO:01001185]": { + "text": "acidic soil [ENVO:01001185]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "bulk soil [ENVO:00005802]": { + "text": "bulk soil [ENVO:00005802]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "red soil [ENVO:00005790]": { + "text": "red soil [ENVO:00005790]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "upland soil [ENVO:00005786]": { + "text": "upland soil [ENVO:00005786]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__mountain forest soil [ENVO:00005769]": { + "text": "__mountain forest soil [ENVO:00005769]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__dune soil [ENVO:00002260]": { + "text": "__dune soil [ENVO:00002260]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "ornithogenic soil [ENVO:00005782]": { + "text": "ornithogenic soil [ENVO:00005782]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "heat stressed soil [ENVO:00005781]": { + "text": "heat stressed soil [ENVO:00005781]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "greenhouse soil [ENVO:00005780]": { + "text": "greenhouse soil [ENVO:00005780]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "tropical soil [ENVO:00005778]": { + "text": "tropical soil [ENVO:00005778]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "pasture soil [ENVO:00005773]": { + "text": "pasture soil [ENVO:00005773]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "muddy soil [ENVO:00005771]": { + "text": "muddy soil [ENVO:00005771]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "orchid soil [ENVO:00005768]": { + "text": "orchid soil [ENVO:00005768]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "manured soil [ENVO:00005767]": { + "text": "manured soil [ENVO:00005767]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "limed soil [ENVO:00005766]": { + "text": "limed soil [ENVO:00005766]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "pond soil [ENVO:00005764]": { + "text": "pond soil [ENVO:00005764]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "meadow soil [ENVO:00005761]": { + "text": "meadow soil [ENVO:00005761]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "burned soil [ENVO:00005760]": { + "text": "burned soil [ENVO:00005760]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "lawn soil [ENVO:00005756]": { + "text": "lawn soil [ENVO:00005756]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "field soil [ENVO:00005755]": { + "text": "field soil [ENVO:00005755]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__paddy field soil [ENVO:00005740]": { + "text": "__paddy field soil [ENVO:00005740]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____peaty paddy field soil [ENVO:00005776]": { + "text": "____peaty paddy field soil [ENVO:00005776]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____alluvial paddy field soil [ENVO:00005759]": { + "text": "____alluvial paddy field soil [ENVO:00005759]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "fertilized soil [ENVO:00005754]": { + "text": "fertilized soil [ENVO:00005754]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "sawah soil [ENVO:00005752]": { + "text": "sawah soil [ENVO:00005752]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "jungle soil [ENVO:00005751]": { + "text": "jungle soil [ENVO:00005751]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "grassland soil [ENVO:00005750]": { + "text": "grassland soil [ENVO:00005750]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__steppe soil [ENVO:00005777]": { + "text": "__steppe soil [ENVO:00005777]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__savanna soil [ENVO:00005746]": { + "text": "__savanna soil [ENVO:00005746]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "farm soil [ENVO:00005749]": { + "text": "farm soil [ENVO:00005749]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__rubber plantation soil [ENVO:00005788]": { + "text": "__rubber plantation soil [ENVO:00005788]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__orchard soil [ENVO:00005772]": { + "text": "__orchard soil [ENVO:00005772]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "dry soil [ENVO:00005748]": { + "text": "dry soil [ENVO:00005748]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "compost soil [ENVO:00005747]": { + "text": "compost soil [ENVO:00005747]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "roadside soil [ENVO:00005743]": { + "text": "roadside soil [ENVO:00005743]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "arable soil [ENVO:00005742]": { + "text": "arable soil [ENVO:00005742]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "alpine soil [ENVO:00005741]": { + "text": "alpine soil [ENVO:00005741]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "alluvial soil [ENVO:00002871]": { + "text": "alluvial soil [ENVO:00002871]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__alluvial paddy field soil [ENVO:00005759]": { + "text": "__alluvial paddy field soil [ENVO:00005759]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__alluvial swamp soil [ENVO:00005758]": { + "text": "__alluvial swamp soil [ENVO:00005758]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "technosol [ENVO:00002275]": { + "text": "technosol [ENVO:00002275]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "stagnosol [ENVO:00002274]": { + "text": "stagnosol [ENVO:00002274]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "fluvisol [ENVO:00002273]": { + "text": "fluvisol [ENVO:00002273]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "garden soil [ENVO:00002263]": { + "text": "garden soil [ENVO:00002263]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__vegetable garden soil [ENVO:00005779]": { + "text": "__vegetable garden soil [ENVO:00005779]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__allotment garden soil [ENVO:00005744]": { + "text": "__allotment garden soil [ENVO:00005744]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "clay soil [ENVO:00002262]": { + "text": "clay soil [ENVO:00002262]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "forest soil [ENVO:00002261]": { + "text": "forest soil [ENVO:00002261]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__eucalyptus forest soil [ENVO:00005787]": { + "text": "__eucalyptus forest soil [ENVO:00005787]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__spruce forest soil [ENVO:00005784]": { + "text": "__spruce forest soil [ENVO:00005784]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__leafy wood soil [ENVO:00005783]": { + "text": "__leafy wood soil [ENVO:00005783]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__beech forest soil [ENVO:00005770]": { + "text": "__beech forest soil [ENVO:00005770]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "agricultural soil [ENVO:00002259]": { + "text": "agricultural soil [ENVO:00002259]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__bluegrass field soil [ENVO:00005789]": { + "text": "__bluegrass field soil [ENVO:00005789]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "loam [ENVO:00002258]": { + "text": "loam [ENVO:00002258]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__clay loam [ENVO:06105277]": { + "text": "__clay loam [ENVO:06105277]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____silty clay loam [ENVO:06105278]": { + "text": "____silty clay loam [ENVO:06105278]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____sandy clay loam [ENVO:06105276]": { + "text": "____sandy clay loam [ENVO:06105276]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__silty loam [ENVO:06105275]": { + "text": "__silty loam [ENVO:06105275]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__sandy loam [ENVO:06105274]": { + "text": "__sandy loam [ENVO:06105274]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "podzol [ENVO:00002257]": { + "text": "podzol [ENVO:00002257]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "regosol [ENVO:00002256]": { + "text": "regosol [ENVO:00002256]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "solonetz [ENVO:00002255]": { + "text": "solonetz [ENVO:00002255]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "vertisol [ENVO:00002254]": { + "text": "vertisol [ENVO:00002254]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "umbrisol [ENVO:00002253]": { + "text": "umbrisol [ENVO:00002253]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "solonchak [ENVO:00002252]": { + "text": "solonchak [ENVO:00002252]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "planosol [ENVO:00002251]": { + "text": "planosol [ENVO:00002251]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "plinthosol [ENVO:00002250]": { + "text": "plinthosol [ENVO:00002250]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "phaeozem [ENVO:00002249]": { + "text": "phaeozem [ENVO:00002249]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "luvisol [ENVO:00002248]": { + "text": "luvisol [ENVO:00002248]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "nitisol [ENVO:00002247]": { + "text": "nitisol [ENVO:00002247]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "ferralsol [ENVO:00002246]": { + "text": "ferralsol [ENVO:00002246]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "gypsisol [ENVO:00002245]": { + "text": "gypsisol [ENVO:00002245]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "gleysol [ENVO:00002244]": { + "text": "gleysol [ENVO:00002244]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "histosol [ENVO:00002243]": { + "text": "histosol [ENVO:00002243]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__peat soil [ENVO:00005774]": { + "text": "__peat soil [ENVO:00005774]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "lixisol [ENVO:00002242]": { + "text": "lixisol [ENVO:00002242]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "leptosol [ENVO:00002241]": { + "text": "leptosol [ENVO:00002241]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "kastanozem [ENVO:00002240]": { + "text": "kastanozem [ENVO:00002240]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "calcisol [ENVO:00002239]": { + "text": "calcisol [ENVO:00002239]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "durisol [ENVO:00002238]": { + "text": "durisol [ENVO:00002238]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "chernozem [ENVO:00002237]": { + "text": "chernozem [ENVO:00002237]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "cambisol [ENVO:00002235]": { + "text": "cambisol [ENVO:00002235]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "albeluvisol [ENVO:00002233]": { + "text": "albeluvisol [ENVO:00002233]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "andosol [ENVO:00002232]": { + "text": "andosol [ENVO:00002232]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__volcanic soil [ENVO:01001841]": { + "text": "__volcanic soil [ENVO:01001841]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "alisol [ENVO:00002231]": { + "text": "alisol [ENVO:00002231]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "anthrosol [ENVO:00002230]": { + "text": "anthrosol [ENVO:00002230]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "arenosol [ENVO:00002229]": { + "text": "arenosol [ENVO:00002229]", + "description": "placeholder PV descr, DO NOT SORT" + } + } + }, + "EnvLocalScaleSoilEnum": { + "name": "EnvLocalScaleSoilEnum", + "description": "placeholder enum descr, DO NOT SORT", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "astronomical body part [ENVO:01000813]": { + "text": "astronomical body part [ENVO:01000813]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__coast [ENVO:01000687]": { + "text": "__coast [ENVO:01000687]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__solid astronomical body part [ENVO:00000191]": { + "text": "__solid astronomical body part [ENVO:00000191]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______landform [ENVO:01001886]": { + "text": "______landform [ENVO:01001886]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______channel [ENVO:03000117]": { + "text": "______channel [ENVO:03000117]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________tunnel [ENVO:00000068]": { + "text": "________tunnel [ENVO:00000068]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______surface landform [ENVO:01001884]": { + "text": "______surface landform [ENVO:01001884]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________desert [ENVO:01001357]": { + "text": "________desert [ENVO:01001357]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________outcrop [ENVO:01000302]": { + "text": "________outcrop [ENVO:01000302]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________boulder field [ENVO:00000537]": { + "text": "________boulder field [ENVO:00000537]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________landfill [ENVO:00000533]": { + "text": "________landfill [ENVO:00000533]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________hummock [ENVO:00000516]": { + "text": "________hummock [ENVO:00000516]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________terrace [ENVO:00000508]": { + "text": "________terrace [ENVO:00000508]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________peninsula [ENVO:00000305]": { + "text": "________peninsula [ENVO:00000305]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________shore [ENVO:00000304]": { + "text": "________shore [ENVO:00000304]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________lake shore [ENVO:00000382]": { + "text": "__________lake shore [ENVO:00000382]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________dry lake [ENVO:00000277]": { + "text": "________dry lake [ENVO:00000277]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________karst [ENVO:00000175]": { + "text": "________karst [ENVO:00000175]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________isthmus [ENVO:00000174]": { + "text": "________isthmus [ENVO:00000174]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________badland [ENVO:00000127]": { + "text": "________badland [ENVO:00000127]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________volcanic feature [ENVO:00000094]": { + "text": "________volcanic feature [ENVO:00000094]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________volcanic cone [ENVO:00000398]": { + "text": "__________volcanic cone [ENVO:00000398]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________tuff cone [ENVO:01000664]": { + "text": "____________tuff cone [ENVO:01000664]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________beach [ENVO:00000091]": { + "text": "________beach [ENVO:00000091]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________plain [ENVO:00000086]": { + "text": "________plain [ENVO:00000086]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________cave [ENVO:00000067]": { + "text": "________cave [ENVO:00000067]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________spring [ENVO:00000027]": { + "text": "________spring [ENVO:00000027]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______slope [ENVO:00002000]": { + "text": "______slope [ENVO:00002000]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________talus slope [ENVO:01000334]": { + "text": "________talus slope [ENVO:01000334]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________hillside [ENVO:01000333]": { + "text": "________hillside [ENVO:01000333]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________levee [ENVO:00000178]": { + "text": "________levee [ENVO:00000178]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________bank [ENVO:00000141]": { + "text": "________bank [ENVO:00000141]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________cliff [ENVO:00000087]": { + "text": "________cliff [ENVO:00000087]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______peak [ENVO:00000480]": { + "text": "______peak [ENVO:00000480]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______depressed landform [ENVO:00000309]": { + "text": "______depressed landform [ENVO:00000309]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________geographic basin [ENVO:03000015]": { + "text": "________geographic basin [ENVO:03000015]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________valley [ENVO:00000100]": { + "text": "__________valley [ENVO:00000100]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________canyon [ENVO:00000169]": { + "text": "____________canyon [ENVO:00000169]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________dry valley [ENVO:00000128]": { + "text": "____________dry valley [ENVO:00000128]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________glacial valley [ENVO:00000248]": { + "text": "____________glacial valley [ENVO:00000248]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________pit [ENVO:01001871]": { + "text": "________pit [ENVO:01001871]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________trench [ENVO:01000649]": { + "text": "________trench [ENVO:01000649]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________swale [ENVO:00000543]": { + "text": "________swale [ENVO:00000543]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________crater [ENVO:00000514]": { + "text": "________crater [ENVO:00000514]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________impact crater [ENVO:01001071]": { + "text": "__________impact crater [ENVO:01001071]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________volcanic crater [ENVO:00000246]": { + "text": "__________volcanic crater [ENVO:00000246]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________caldera [ENVO:00000096]": { + "text": "__________caldera [ENVO:00000096]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________channel of a watercourse [ENVO:00000395]": { + "text": "________channel of a watercourse [ENVO:00000395]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________strait [ENVO:00000394]": { + "text": "__________strait [ENVO:00000394]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________dry stream [ENVO:00000278]": { + "text": "__________dry stream [ENVO:00000278]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________dry river [ENVO:01000995]": { + "text": "____________dry river [ENVO:01000995]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________artificial channel [ENVO:00000121]": { + "text": "__________artificial channel [ENVO:00000121]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________plumbing drain [ENVO:01000924]": { + "text": "____________plumbing drain [ENVO:01000924]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________ditch [ENVO:00000037]": { + "text": "____________ditch [ENVO:00000037]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________sinkhole [ENVO:00000195]": { + "text": "________sinkhole [ENVO:00000195]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______elevated landform [ENVO:00000176]": { + "text": "______elevated landform [ENVO:00000176]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________flattened elevation [ENVO:01001491]": { + "text": "________flattened elevation [ENVO:01001491]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________butte [ENVO:00000287]": { + "text": "__________butte [ENVO:00000287]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________plateau [ENVO:00000182]": { + "text": "__________plateau [ENVO:00000182]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________mesa [ENVO:00000179]": { + "text": "__________mesa [ENVO:00000179]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________pinnacle [ENVO:00000481]": { + "text": "________pinnacle [ENVO:00000481]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________mount [ENVO:00000477]": { + "text": "________mount [ENVO:00000477]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________hill [ENVO:00000083]": { + "text": "__________hill [ENVO:00000083]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____________dune [ENVO:00000170]": { + "text": "____________dune [ENVO:00000170]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__________mountain [ENVO:00000081]": { + "text": "__________mountain [ENVO:00000081]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________ridge [ENVO:00000283]": { + "text": "________ridge [ENVO:00000283]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____part of a landmass [ENVO:01001781]": { + "text": "____part of a landmass [ENVO:01001781]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______peninsula [ENVO:00000305]": { + "text": "______peninsula [ENVO:00000305]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____geological fracture [ENVO:01000667]": { + "text": "____geological fracture [ENVO:01000667]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______vein [ENVO:01000670]": { + "text": "______vein [ENVO:01000670]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______geological fault [ENVO:01000668]": { + "text": "______geological fault [ENVO:01000668]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________active geological fault [ENVO:01000669]": { + "text": "________active geological fault [ENVO:01000669]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______volcano [ENVO:00000247]": { + "text": "______volcano [ENVO:00000247]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__field [ENVO:01000352]": { + "text": "__field [ENVO:01000352]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____lava field [ENVO:01000437]": { + "text": "____lava field [ENVO:01000437]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____gravel field [ENVO:00000548]": { + "text": "____gravel field [ENVO:00000548]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____woodland clearing [ENVO:00000444]": { + "text": "____woodland clearing [ENVO:00000444]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____agricultural field [ENVO:00000114]": { + "text": "____agricultural field [ENVO:00000114]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____snow field [ENVO:00000146]": { + "text": "____snow field [ENVO:00000146]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "__geographic feature [ENVO:00000000]": { + "text": "__geographic feature [ENVO:00000000]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____hydrographic feature [ENVO:00000012]": { + "text": "____hydrographic feature [ENVO:00000012]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______reef [ENVO:01001899]": { + "text": "______reef [ENVO:01001899]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______inlet [ENVO:00000475]": { + "text": "______inlet [ENVO:00000475]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______bar [ENVO:00000167]": { + "text": "______bar [ENVO:00000167]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________tombolo [ENVO:00000420]": { + "text": "________tombolo [ENVO:00000420]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "____anthropogenic geographic feature [ENVO:00000002]": { + "text": "____anthropogenic geographic feature [ENVO:00000002]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______yard [ENVO:03600053]": { + "text": "______yard [ENVO:03600053]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "________residential backyard [ENVO:03600033]": { + "text": "________residential backyard [ENVO:03600033]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______market [ENVO:01000987]": { + "text": "______market [ENVO:01000987]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______park [ENVO:00000562]": { + "text": "______park [ENVO:00000562]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______well [ENVO:00000026]": { + "text": "______well [ENVO:00000026]", + "description": "placeholder PV descr, DO NOT SORT" + }, + "______garden [ENVO:00000011]": { + "text": "______garden [ENVO:00000011]", + "description": "placeholder PV descr, DO NOT SORT" + } + } + }, + "OxyStatSampEnum": { + "name": "OxyStatSampEnum", + "description": "placeholder enum descr, DO NOT SORT", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "aerobic": { + "text": "aerobic", + "description": "placeholder PV descr, DO NOT SORT" + }, + "anaerobic": { + "text": "anaerobic", + "description": "placeholder PV descr, DO NOT SORT" + }, + "other": { + "text": "other", + "description": "placeholder PV descr, DO NOT SORT" + } + } + }, + "window_mat_enum": { + "name": "window_mat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "clad": { + "text": "clad" + }, + "fiberglass": { + "text": "fiberglass" + }, + "metal": { + "text": "metal" + }, + "vinyl": { + "text": "vinyl" + }, + "wood": { + "text": "wood" + } + } + }, + "substructure_type_enum": { + "name": "substructure_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "crawlspace": { + "text": "crawlspace" + }, + "slab on grade": { + "text": "slab on grade" + }, + "basement": { + "text": "basement" + } + } + }, + "filter_type_enum": { + "name": "filter_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "particulate air filter": { + "text": "particulate air filter" + }, + "chemical air filter": { + "text": "chemical air filter" + }, + "low-MERV pleated media": { + "text": "low-MERV pleated media" + }, + "HEPA": { + "text": "HEPA" + }, + "electrostatic": { + "text": "electrostatic" + }, + "gas-phase or ultraviolet air treatments": { + "text": "gas-phase or ultraviolet air treatments" + } + } + }, + "weekday_enum": { + "name": "weekday_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Monday": { + "text": "Monday" + }, + "Tuesday": { + "text": "Tuesday" + }, + "Wednesday": { + "text": "Wednesday" + }, + "Thursday": { + "text": "Thursday" + }, + "Friday": { + "text": "Friday" + }, + "Saturday": { + "text": "Saturday" + }, + "Sunday": { + "text": "Sunday" + } + } + }, + "train_line_enum": { + "name": "train_line_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "red": { + "text": "red" + }, + "green": { + "text": "green" + }, + "orange": { + "text": "orange" + } + } + }, + "door_direct_enum": { + "name": "door_direct_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "inward": { + "text": "inward" + }, + "outward": { + "text": "outward" + }, + "sideways": { + "text": "sideways" + } + } + }, + "furniture_enum": { + "name": "furniture_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "cabinet": { + "text": "cabinet" + }, + "chair": { + "text": "chair" + }, + "desks": { + "text": "desks" + } + } + }, + "occup_document_enum": { + "name": "occup_document_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "automated count": { + "text": "automated count" + }, + "estimate": { + "text": "estimate" + }, + "manual count": { + "text": "manual count" + }, + "videos": { + "text": "videos" + } + } + }, + "window_horiz_pos_enum": { + "name": "window_horiz_pos_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "left": { + "text": "left" + }, + "middle": { + "text": "middle" + }, + "right": { + "text": "right" + } + } + }, + "window_cover_enum": { + "name": "window_cover_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "blinds": { + "text": "blinds" + }, + "curtains": { + "text": "curtains" + }, + "none": { + "text": "none" + } + } + }, + "shading_device_cond_enum": { + "name": "shading_device_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "damaged": { + "text": "damaged" + }, + "needs repair": { + "text": "needs repair" + }, + "new": { + "text": "new" + }, + "rupture": { + "text": "rupture" + }, + "visible wear": { + "text": "visible wear" + } + } + }, + "int_wall_cond_enum": { + "name": "int_wall_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "new": { + "text": "new" + }, + "visible wear": { + "text": "visible wear" + }, + "needs repair": { + "text": "needs repair" + }, + "damaged": { + "text": "damaged" + }, + "rupture": { + "text": "rupture" + } + } + }, + "light_type_enum": { + "name": "light_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "natural light": { + "text": "natural light" + }, + "electric light": { + "text": "electric light" + }, + "desk lamp": { + "text": "desk lamp" + }, + "flourescent lights": { + "text": "flourescent lights" + }, + "none": { + "text": "none" + } + } + }, + "ext_window_orient_enum": { + "name": "ext_window_orient_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + }, + "northeast": { + "text": "northeast" + }, + "southeast": { + "text": "southeast" + }, + "southwest": { + "text": "southwest" + }, + "northwest": { + "text": "northwest" + } + } + }, + "arch_struc_enum": { + "name": "arch_struc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "building": { + "text": "building" + }, + "shed": { + "text": "shed" + }, + "home": { + "text": "home" + } + } + }, + "floor_struc_enum": { + "name": "floor_struc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "balcony": { + "text": "balcony" + }, + "floating floor": { + "text": "floating floor" + }, + "glass floor": { + "text": "glass floor" + }, + "raised floor": { + "text": "raised floor" + }, + "sprung floor": { + "text": "sprung floor" + }, + "wood-framed": { + "text": "wood-framed" + }, + "concrete": { + "text": "concrete" + } + } + }, + "handidness_enum": { + "name": "handidness_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "ambidexterity": { + "text": "ambidexterity" + }, + "left handedness": { + "text": "left handedness" + }, + "mixed-handedness": { + "text": "mixed-handedness" + }, + "right handedness": { + "text": "right handedness" + } + } + }, + "wall_surf_treatment_enum": { + "name": "wall_surf_treatment_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "painted": { + "text": "painted" + }, + "wall paper": { + "text": "wall paper" + }, + "no treatment": { + "text": "no treatment" + }, + "paneling": { + "text": "paneling" + }, + "stucco": { + "text": "stucco" + }, + "fabric": { + "text": "fabric" + } + } + }, + "specific_enum": { + "name": "specific_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "operation": { + "text": "operation" + }, + "as built": { + "text": "as built" + }, + "construction": { + "text": "construction" + }, + "bid": { + "text": "bid" + }, + "design": { + "text": "design" + }, + "photos": { + "text": "photos" + } + } + }, + "window_loc_enum": { + "name": "window_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + } + } + }, + "building_setting_enum": { + "name": "building_setting_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "urban": { + "text": "urban" + }, + "suburban": { + "text": "suburban" + }, + "exurban": { + "text": "exurban" + }, + "rural": { + "text": "rural" + } + } + }, + "samp_floor_enum": { + "name": "samp_floor_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "1st floor": { + "text": "1st floor" + }, + "2nd floor": { + "text": "2nd floor" + }, + "basement": { + "text": "basement" + }, + "lobby": { + "text": "lobby" + } + } + }, + "vis_media_enum": { + "name": "vis_media_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "photos": { + "text": "photos" + }, + "videos": { + "text": "videos" + }, + "commonly of the building": { + "text": "commonly of the building" + }, + "site context (adjacent buildings, vegetation, terrain, streets)": { + "text": "site context (adjacent buildings, vegetation, terrain, streets)" + }, + "interiors": { + "text": "interiors" + }, + "equipment": { + "text": "equipment" + }, + "3D scans": { + "text": "3D scans" + } + } + }, + "indoor_space_enum": { + "name": "indoor_space_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "bedroom": { + "text": "bedroom" + }, + "office": { + "text": "office" + }, + "bathroom": { + "text": "bathroom" + }, + "foyer": { + "text": "foyer" + }, + "kitchen": { + "text": "kitchen" + }, + "locker room": { + "text": "locker room" + }, + "hallway": { + "text": "hallway" + }, + "elevator": { + "text": "elevator" + } + } + }, + "ceil_texture_enum": { + "name": "ceil_texture_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "crows feet": { + "text": "crows feet" + }, + "crows-foot stomp": { + "text": "crows-foot stomp" + }, + "double skip": { + "text": "double skip" + }, + "hawk and trowel": { + "text": "hawk and trowel" + }, + "knockdown": { + "text": "knockdown" + }, + "popcorn": { + "text": "popcorn" + }, + "orange peel": { + "text": "orange peel" + }, + "rosebud stomp": { + "text": "rosebud stomp" + }, + "Santa-Fe texture": { + "text": "Santa-Fe texture" + }, + "skip trowel": { + "text": "skip trowel" + }, + "smooth": { + "text": "smooth" + }, + "stomp knockdown": { + "text": "stomp knockdown" + }, + "swirl": { + "text": "swirl" + } + } + }, + "door_move_enum": { + "name": "door_move_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "collapsible": { + "text": "collapsible" + }, + "folding": { + "text": "folding" + }, + "revolving": { + "text": "revolving" + }, + "rolling shutter": { + "text": "rolling shutter" + }, + "sliding": { + "text": "sliding" + }, + "swinging": { + "text": "swinging" + } + } + }, + "door_comp_type_enum": { + "name": "door_comp_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "metal covered": { + "text": "metal covered" + }, + "revolving": { + "text": "revolving" + }, + "sliding": { + "text": "sliding" + }, + "telescopic": { + "text": "telescopic" + } + } + }, + "wall_texture_enum": { + "name": "wall_texture_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "crows feet": { + "text": "crows feet" + }, + "crows-foot stomp": { + "text": "crows-foot stomp" + }, + "": { + "text": "" + }, + "double skip": { + "text": "double skip" + }, + "hawk and trowel": { + "text": "hawk and trowel" + }, + "knockdown": { + "text": "knockdown" + }, + "popcorn": { + "text": "popcorn" + }, + "orange peel": { + "text": "orange peel" + }, + "rosebud stomp": { + "text": "rosebud stomp" + }, + "Santa-Fe texture": { + "text": "Santa-Fe texture" + }, + "skip trowel": { + "text": "skip trowel" + }, + "smooth": { + "text": "smooth" + }, + "stomp knockdown": { + "text": "stomp knockdown" + }, + "swirl": { + "text": "swirl" + } + } + }, + "wall_loc_enum": { + "name": "wall_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + } + } + }, + "floor_water_mold_enum": { + "name": "floor_water_mold_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "mold odor": { + "text": "mold odor" + }, + "wet floor": { + "text": "wet floor" + }, + "water stains": { + "text": "water stains" + }, + "wall discoloration": { + "text": "wall discoloration" + }, + "floor discoloration": { + "text": "floor discoloration" + }, + "ceiling discoloration": { + "text": "ceiling discoloration" + }, + "peeling paint or wallpaper": { + "text": "peeling paint or wallpaper" + }, + "bulging walls": { + "text": "bulging walls" + }, + "condensation": { + "text": "condensation" + } + } + }, + "door_type_enum": { + "name": "door_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "composite": { + "text": "composite" + }, + "metal": { + "text": "metal" + }, + "wooden": { + "text": "wooden" + } + } + }, + "window_cond_enum": { + "name": "window_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "damaged": { + "text": "damaged" + }, + "needs repair": { + "text": "needs repair" + }, + "new": { + "text": "new" + }, + "rupture": { + "text": "rupture" + }, + "visible wear": { + "text": "visible wear" + } + } + }, + "water_feat_type_enum": { + "name": "water_feat_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "fountain": { + "text": "fountain" + }, + "pool": { + "text": "pool" + }, + "standing feature": { + "text": "standing feature" + }, + "stream": { + "text": "stream" + }, + "waterfall": { + "text": "waterfall" + } + } + }, + "floor_cond_enum": { + "name": "floor_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "new": { + "text": "new" + }, + "visible wear": { + "text": "visible wear" + }, + "needs repair": { + "text": "needs repair" + }, + "damaged": { + "text": "damaged" + }, + "rupture": { + "text": "rupture" + } + } + }, + "indoor_surf_enum": { + "name": "indoor_surf_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "cabinet": { + "text": "cabinet" + }, + "ceiling": { + "text": "ceiling" + }, + "counter top": { + "text": "counter top" + }, + "door": { + "text": "door" + }, + "shelving": { + "text": "shelving" + }, + "vent cover": { + "text": "vent cover" + }, + "window": { + "text": "window" + }, + "wall": { + "text": "wall" + } + } + }, + "ext_wall_orient_enum": { + "name": "ext_wall_orient_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + }, + "northeast": { + "text": "northeast" + }, + "southeast": { + "text": "southeast" + }, + "southwest": { + "text": "southwest" + }, + "northwest": { + "text": "northwest" + } + } + }, + "build_occup_type_enum": { + "name": "build_occup_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "office": { + "text": "office" + }, + "market": { + "text": "market" + }, + "restaurant": { + "text": "restaurant" + }, + "residence": { + "text": "residence" + }, + "school": { + "text": "school" + }, + "residential": { + "text": "residential" + }, + "commercial": { + "text": "commercial" + }, + "low rise": { + "text": "low rise" + }, + "high rise": { + "text": "high rise" + }, + "wood framed": { + "text": "wood framed" + }, + "health care": { + "text": "health care" + }, + "airport": { + "text": "airport" + }, + "sports complex": { + "text": "sports complex" + } + } + }, + "door_mat_enum": { + "name": "door_mat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "aluminum": { + "text": "aluminum" + }, + "cellular PVC": { + "text": "cellular PVC" + }, + "engineered plastic": { + "text": "engineered plastic" + }, + "fiberboard": { + "text": "fiberboard" + }, + "fiberglass": { + "text": "fiberglass" + }, + "metal": { + "text": "metal" + }, + "thermoplastic alloy": { + "text": "thermoplastic alloy" + }, + "vinyl": { + "text": "vinyl" + }, + "wood": { + "text": "wood" + }, + "wood/plastic composite": { + "text": "wood/plastic composite" + } + } + }, + "door_loc_enum": { + "name": "door_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + } + } + }, + "mech_struc_enum": { + "name": "mech_struc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "subway": { + "text": "subway" + }, + "coach": { + "text": "coach" + }, + "carriage": { + "text": "carriage" + }, + "elevator": { + "text": "elevator" + }, + "escalator": { + "text": "escalator" + }, + "boat": { + "text": "boat" + }, + "train": { + "text": "train" + }, + "car": { + "text": "car" + }, + "bus": { + "text": "bus" + } + } + }, + "surf_air_cont_enum": { + "name": "surf_air_cont_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "dust": { + "text": "dust" + }, + "organic matter": { + "text": "organic matter" + }, + "particulate matter": { + "text": "particulate matter" + }, + "volatile organic compounds": { + "text": "volatile organic compounds" + }, + "biological contaminants": { + "text": "biological contaminants" + }, + "radon": { + "text": "radon" + }, + "nutrients": { + "text": "nutrients" + }, + "biocides": { + "text": "biocides" + } + } + }, + "shading_device_type_enum": { + "name": "shading_device_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "bahama shutters": { + "text": "bahama shutters" + }, + "exterior roll blind": { + "text": "exterior roll blind" + }, + "gambrel awning": { + "text": "gambrel awning" + }, + "hood awning": { + "text": "hood awning" + }, + "porchroller awning": { + "text": "porchroller awning" + }, + "sarasota shutters": { + "text": "sarasota shutters" + }, + "slatted aluminum": { + "text": "slatted aluminum" + }, + "solid aluminum awning": { + "text": "solid aluminum awning" + }, + "sun screen": { + "text": "sun screen" + }, + "tree": { + "text": "tree" + }, + "trellis": { + "text": "trellis" + }, + "venetian awning": { + "text": "venetian awning" + } + } + }, + "room_loc_enum": { + "name": "room_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "corner room": { + "text": "corner room" + }, + "interior room": { + "text": "interior room" + }, + "exterior wall": { + "text": "exterior wall" + } + } + }, + "room_condt_enum": { + "name": "room_condt_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "new": { + "text": "new" + }, + "visible wear": { + "text": "visible wear" + }, + "needs repair": { + "text": "needs repair" + }, + "damaged": { + "text": "damaged" + }, + "rupture": { + "text": "rupture" + }, + "visible signs of mold/mildew": { + "text": "visible signs of mold/mildew" + } + } + }, + "surf_material_enum": { + "name": "surf_material_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "adobe": { + "text": "adobe" + }, + "carpet": { + "text": "carpet" + }, + "cinder blocks": { + "text": "cinder blocks" + }, + "concrete": { + "text": "concrete" + }, + "hay bales": { + "text": "hay bales" + }, + "glass": { + "text": "glass" + }, + "metal": { + "text": "metal" + }, + "paint": { + "text": "paint" + }, + "plastic": { + "text": "plastic" + }, + "stainless steel": { + "text": "stainless steel" + }, + "stone": { + "text": "stone" + }, + "stucco": { + "text": "stucco" + }, + "tile": { + "text": "tile" + }, + "vinyl": { + "text": "vinyl" + }, + "wood": { + "text": "wood" + } + } + }, + "ceil_finish_mat_enum": { + "name": "ceil_finish_mat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "drywall": { + "text": "drywall" + }, + "mineral fibre": { + "text": "mineral fibre" + }, + "tiles": { + "text": "tiles" + }, + "PVC": { + "text": "PVC" + }, + "plasterboard": { + "text": "plasterboard" + }, + "metal": { + "text": "metal" + }, + "fiberglass": { + "text": "fiberglass" + }, + "stucco": { + "text": "stucco" + }, + "mineral wool/calcium silicate": { + "text": "mineral wool/calcium silicate" + }, + "wood": { + "text": "wood" + } + } + }, + "door_type_wood_enum": { + "name": "door_type_wood_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "bettened and ledged": { + "text": "bettened and ledged" + }, + "battened": { + "text": "battened" + }, + "ledged and braced": { + "text": "ledged and braced" + }, + "ledged and framed": { + "text": "ledged and framed" + }, + "ledged, braced and frame": { + "text": "ledged, braced and frame" + }, + "framed and paneled": { + "text": "framed and paneled" + }, + "glashed or sash": { + "text": "glashed or sash" + }, + "flush": { + "text": "flush" + }, + "louvered": { + "text": "louvered" + }, + "wire gauged": { + "text": "wire gauged" + } + } + }, + "heat_deliv_loc_enum": { + "name": "heat_deliv_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north": { + "text": "north" + }, + "south": { + "text": "south" + }, + "east": { + "text": "east" + }, + "west": { + "text": "west" + } + } + }, + "train_stat_loc_enum": { + "name": "train_stat_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "south station above ground": { + "text": "south station above ground" + }, + "south station underground": { + "text": "south station underground" + }, + "south station amtrak": { + "text": "south station amtrak" + }, + "forest hills": { + "text": "forest hills" + }, + "riverside": { + "text": "riverside" + } + } + }, + "floor_finish_mat_enum": { + "name": "floor_finish_mat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "tile": { + "text": "tile" + }, + "wood strip or parquet": { + "text": "wood strip or parquet" + }, + "carpet": { + "text": "carpet" + }, + "rug": { + "text": "rug" + }, + "laminate wood": { + "text": "laminate wood" + }, + "lineoleum": { + "text": "lineoleum" + }, + "vinyl composition tile": { + "text": "vinyl composition tile" + }, + "sheet vinyl": { + "text": "sheet vinyl" + }, + "stone": { + "text": "stone" + }, + "bamboo": { + "text": "bamboo" + }, + "cork": { + "text": "cork" + }, + "terrazo": { + "text": "terrazo" + }, + "concrete": { + "text": "concrete" + }, + "none": { + "text": "none" + }, + "sealed": { + "text": "sealed" + }, + "clear finish": { + "text": "clear finish" + }, + "paint": { + "text": "paint" + }, + "none or unfinished": { + "text": "none or unfinished" + } + } + }, + "window_type_enum": { + "name": "window_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "single-hung sash window": { + "text": "single-hung sash window" + }, + "horizontal sash window": { + "text": "horizontal sash window" + }, + "fixed window": { + "text": "fixed window" + } + } + }, + "drawings_enum": { + "name": "drawings_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "operation": { + "text": "operation" + }, + "as built": { + "text": "as built" + }, + "construction": { + "text": "construction" + }, + "bid": { + "text": "bid" + }, + "design": { + "text": "design" + }, + "building navigation map": { + "text": "building navigation map" + }, + "diagram": { + "text": "diagram" + }, + "sketch": { + "text": "sketch" + } + } + }, + "wall_const_type_enum": { + "name": "wall_const_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "frame construction": { + "text": "frame construction" + }, + "joisted masonry": { + "text": "joisted masonry" + }, + "light noncombustible": { + "text": "light noncombustible" + }, + "masonry noncombustible": { + "text": "masonry noncombustible" + }, + "modified fire resistive": { + "text": "modified fire resistive" + }, + "fire resistive": { + "text": "fire resistive" + } + } + }, + "wall_finish_mat_enum": { + "name": "wall_finish_mat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "plaster": { + "text": "plaster" + }, + "gypsum plaster": { + "text": "gypsum plaster" + }, + "veneer plaster": { + "text": "veneer plaster" + }, + "gypsum board": { + "text": "gypsum board" + }, + "tile": { + "text": "tile" + }, + "terrazzo": { + "text": "terrazzo" + }, + "stone facing": { + "text": "stone facing" + }, + "acoustical treatment": { + "text": "acoustical treatment" + }, + "wood": { + "text": "wood" + }, + "metal": { + "text": "metal" + }, + "masonry": { + "text": "masonry" + } + } + }, + "heat_cool_type_enum": { + "name": "heat_cool_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "radiant system": { + "text": "radiant system" + }, + "heat pump": { + "text": "heat pump" + }, + "forced air system": { + "text": "forced air system" + }, + "steam forced heat": { + "text": "steam forced heat" + }, + "wood stove": { + "text": "wood stove" + } + } + }, + "window_vert_pos_enum": { + "name": "window_vert_pos_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "bottom": { + "text": "bottom" + }, + "middle": { + "text": "middle" + }, + "top": { + "text": "top" + }, + "low": { + "text": "low" + }, + "high": { + "text": "high" + } + } + }, + "ceil_cond_enum": { + "name": "ceil_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "new": { + "text": "new" + }, + "visible wear": { + "text": "visible wear" + }, + "needs repair": { + "text": "needs repair" + }, + "damaged": { + "text": "damaged" + }, + "rupture": { + "text": "rupture" + } + } + }, + "door_cond_enum": { + "name": "door_cond_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "damaged": { + "text": "damaged" + }, + "needs repair": { + "text": "needs repair" + }, + "new": { + "text": "new" + }, + "rupture": { + "text": "rupture" + }, + "visible wear": { + "text": "visible wear" + } + } + }, + "rel_samp_loc_enum": { + "name": "rel_samp_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "edge of car": { + "text": "edge of car" + }, + "center of car": { + "text": "center of car" + }, + "under a seat": { + "text": "under a seat" + } + } + }, + "room_connected_enum": { + "name": "room_connected_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "attic": { + "text": "attic" + }, + "bathroom": { + "text": "bathroom" + }, + "closet": { + "text": "closet" + }, + "conference room": { + "text": "conference room" + }, + "elevator": { + "text": "elevator" + }, + "examining room": { + "text": "examining room" + }, + "hallway": { + "text": "hallway" + }, + "kitchen": { + "text": "kitchen" + }, + "mail room": { + "text": "mail room" + }, + "office": { + "text": "office" + }, + "stairwell": { + "text": "stairwell" + } + } + }, + "train_stop_loc_enum": { + "name": "train_stop_loc_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "end": { + "text": "end" + }, + "mid": { + "text": "mid" + }, + "downtown": { + "text": "downtown" + } + } + }, + "quad_pos_enum": { + "name": "quad_pos_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "North side": { + "text": "North side" + }, + "West side": { + "text": "West side" + }, + "South side": { + "text": "South side" + }, + "East side": { + "text": "East side" + } + } + }, + "ceil_type_enum": { + "name": "ceil_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "cathedral": { + "text": "cathedral" + }, + "dropped": { + "text": "dropped" + }, + "concave": { + "text": "concave" + }, + "barrel-shaped": { + "text": "barrel-shaped" + }, + "coffered": { + "text": "coffered" + }, + "cove": { + "text": "cove" + }, + "stretched": { + "text": "stretched" + } + } + }, + "build_docs_enum": { + "name": "build_docs_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "building information model": { + "text": "building information model" + }, + "commissioning report": { + "text": "commissioning report" + }, + "complaint logs": { + "text": "complaint logs" + }, + "contract administration": { + "text": "contract administration" + }, + "cost estimate": { + "text": "cost estimate" + }, + "janitorial schedules or logs": { + "text": "janitorial schedules or logs" + }, + "maintenance plans": { + "text": "maintenance plans" + }, + "schedule": { + "text": "schedule" + }, + "sections": { + "text": "sections" + }, + "shop drawings": { + "text": "shop drawings" + }, + "submittals": { + "text": "submittals" + }, + "ventilation system": { + "text": "ventilation system" + }, + "windows": { + "text": "windows" + } + } + }, + "room_type_enum": { + "name": "room_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "attic": { + "text": "attic" + }, + "bathroom": { + "text": "bathroom" + }, + "closet": { + "text": "closet" + }, + "conference room": { + "text": "conference room" + }, + "elevator": { + "text": "elevator" + }, + "examining room": { + "text": "examining room" + }, + "hallway": { + "text": "hallway" + }, + "kitchen": { + "text": "kitchen" + }, + "mail room": { + "text": "mail room" + }, + "private office": { + "text": "private office" + }, + "open office": { + "text": "open office" + }, + "stairwell": { + "text": "stairwell" + }, + ",restroom": { + "text": ",restroom" + }, + "lobby": { + "text": "lobby" + }, + "vestibule": { + "text": "vestibule" + }, + "mechanical or electrical room": { + "text": "mechanical or electrical room" + }, + "data center": { + "text": "data center" + }, + "laboratory_wet": { + "text": "laboratory_wet" + }, + "laboratory_dry": { + "text": "laboratory_dry" + }, + "gymnasium": { + "text": "gymnasium" + }, + "natatorium": { + "text": "natatorium" + }, + "auditorium": { + "text": "auditorium" + }, + "lockers": { + "text": "lockers" + }, + "cafe": { + "text": "cafe" + }, + "warehouse": { + "text": "warehouse" + } + } + }, + "season_use_enum": { + "name": "season_use_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Spring": { + "text": "Spring" + }, + "Summer": { + "text": "Summer" + }, + "Fall": { + "text": "Fall" + }, + "Winter": { + "text": "Winter" + } + } + }, + "door_type_metal_enum": { + "name": "door_type_metal_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "collapsible": { + "text": "collapsible" + }, + "corrugated steel": { + "text": "corrugated steel" + }, + "hollow": { + "text": "hollow" + }, + "rolling shutters": { + "text": "rolling shutters" + }, + "steel plate": { + "text": "steel plate" + } + } + }, + "room_samp_pos_enum": { + "name": "room_samp_pos_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "north corner": { + "text": "north corner" + }, + "south corner": { + "text": "south corner" + }, + "west corner": { + "text": "west corner" + }, + "east corner": { + "text": "east corner" + }, + "northeast corner": { + "text": "northeast corner" + }, + "northwest corner": { + "text": "northwest corner" + }, + "southeast corner": { + "text": "southeast corner" + }, + "southwest corner": { + "text": "southwest corner" + }, + "center": { + "text": "center" + } + } + }, + "samp_weather_enum": { + "name": "samp_weather_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "clear sky": { + "text": "clear sky" + }, + "cloudy": { + "text": "cloudy" + }, + "foggy": { + "text": "foggy" + }, + "hail": { + "text": "hail" + }, + "rain": { + "text": "rain" + }, + "snow": { + "text": "snow" + }, + "sleet": { + "text": "sleet" + }, + "sunny": { + "text": "sunny" + }, + "windy": { + "text": "windy" + } + } + }, + "gender_restroom_enum": { + "name": "gender_restroom_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "all gender": { + "text": "all gender" + }, + "female": { + "text": "female" + }, + "gender neurtral": { + "text": "gender neurtral" + }, + "male": { + "text": "male" + }, + "male and female": { + "text": "male and female" + }, + "unisex": { + "text": "unisex" + } + } + }, + "hc_produced_enum": { + "name": "hc_produced_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Oil": { + "text": "Oil" + }, + "Gas-Condensate": { + "text": "Gas-Condensate" + }, + "Gas": { + "text": "Gas" + }, + "Bitumen": { + "text": "Bitumen" + }, + "Coalbed Methane": { + "text": "Coalbed Methane" + }, + "other": { + "text": "other" + } + } + }, + "hcr_enum": { + "name": "hcr_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Oil Reservoir": { + "text": "Oil Reservoir" + }, + "Gas Reservoir": { + "text": "Gas Reservoir" + }, + "Oil Sand": { + "text": "Oil Sand" + }, + "Coalbed": { + "text": "Coalbed" + }, + "Shale": { + "text": "Shale" + }, + "Tight Oil Reservoir": { + "text": "Tight Oil Reservoir" + }, + "Tight Gas Reservoir": { + "text": "Tight Gas Reservoir" + }, + "other": { + "text": "other" + } + } + }, + "lithology_enum": { + "name": "lithology_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Basement": { + "text": "Basement" + }, + "Chalk": { + "text": "Chalk" + }, + "Chert": { + "text": "Chert" + }, + "Coal": { + "text": "Coal" + }, + "Conglomerate": { + "text": "Conglomerate" + }, + "Diatomite": { + "text": "Diatomite" + }, + "Dolomite": { + "text": "Dolomite" + }, + "Limestone": { + "text": "Limestone" + }, + "Sandstone": { + "text": "Sandstone" + }, + "Shale": { + "text": "Shale" + }, + "Siltstone": { + "text": "Siltstone" + }, + "Volcanic": { + "text": "Volcanic" + }, + "other": { + "text": "other" + } + } + }, + "samp_collect_point_enum": { + "name": "samp_collect_point_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "well": { + "text": "well" + }, + "test well": { + "text": "test well" + }, + "drilling rig": { + "text": "drilling rig" + }, + "wellhead": { + "text": "wellhead" + }, + "separator": { + "text": "separator" + }, + "storage tank": { + "text": "storage tank" + }, + "other": { + "text": "other" + } + } + }, + "oxy_stat_samp_enum": { + "name": "oxy_stat_samp_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "aerobic": { + "text": "aerobic" + }, + "anaerobic": { + "text": "anaerobic" + }, + "other": { + "text": "other" + } + } + }, + "depos_env_enum": { + "name": "depos_env_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Continental - Alluvial": { + "text": "Continental - Alluvial" + }, + "Continental - Aeolian": { + "text": "Continental - Aeolian" + }, + "Continental - Fluvial": { + "text": "Continental - Fluvial" + }, + "Continental - Lacustrine": { + "text": "Continental - Lacustrine" + }, + "Transitional - Deltaic": { + "text": "Transitional - Deltaic" + }, + "Transitional - Tidal": { + "text": "Transitional - Tidal" + }, + "Transitional - Lagoonal": { + "text": "Transitional - Lagoonal" + }, + "Transitional - Beach": { + "text": "Transitional - Beach" + }, + "Transitional - Lake": { + "text": "Transitional - Lake" + }, + "Marine - Shallow": { + "text": "Marine - Shallow" + }, + "Marine - Deep": { + "text": "Marine - Deep" + }, + "Marine - Reef": { + "text": "Marine - Reef" + }, + "Other - Evaporite": { + "text": "Other - Evaporite" + }, + "Other - Glacial": { + "text": "Other - Glacial" + }, + "Other - Volcanic": { + "text": "Other - Volcanic" + }, + "other": { + "text": "other" + } + } + }, + "hcr_geol_age_enum": { + "name": "hcr_geol_age_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Archean": { + "text": "Archean" + }, + "Cambrian": { + "text": "Cambrian" + }, + "Carboniferous": { + "text": "Carboniferous" + }, + "Cenozoic": { + "text": "Cenozoic" + }, + "Cretaceous": { + "text": "Cretaceous" + }, + "Devonian": { + "text": "Devonian" + }, + "Jurassic": { + "text": "Jurassic" + }, + "Mesozoic": { + "text": "Mesozoic" + }, + "Neogene": { + "text": "Neogene" + }, + "Ordovician": { + "text": "Ordovician" + }, + "Paleogene": { + "text": "Paleogene" + }, + "Paleozoic": { + "text": "Paleozoic" + }, + "Permian": { + "text": "Permian" + }, + "Precambrian": { + "text": "Precambrian" + }, + "Proterozoic": { + "text": "Proterozoic" + }, + "Silurian": { + "text": "Silurian" + }, + "Triassic": { + "text": "Triassic" + }, + "other": { + "text": "other" + } + } + }, + "samp_subtype_enum": { + "name": "samp_subtype_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "oil phase": { + "text": "oil phase" + }, + "water phase": { + "text": "water phase" + }, + "biofilm": { + "text": "biofilm" + }, + "not applicable": { + "text": "not applicable" + }, + "other": { + "text": "other" + } + } + }, + "sr_lithology_enum": { + "name": "sr_lithology_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Clastic": { + "text": "Clastic" + }, + "Carbonate": { + "text": "Carbonate" + }, + "Coal": { + "text": "Coal" + }, + "Biosilicieous": { + "text": "Biosilicieous" + }, + "other": { + "text": "other" + } + } + }, + "sr_kerog_type_enum": { + "name": "sr_kerog_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Type I": { + "text": "Type I" + }, + "Type II": { + "text": "Type II" + }, + "Type III": { + "text": "Type III" + }, + "Type IV": { + "text": "Type IV" + }, + "other": { + "text": "other" + } + } + }, + "sr_dep_env_enum": { + "name": "sr_dep_env_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Lacustine": { + "text": "Lacustine" + }, + "Fluvioldeltaic": { + "text": "Fluvioldeltaic" + }, + "Fluviomarine": { + "text": "Fluviomarine" + }, + "Marine": { + "text": "Marine" + }, + "other": { + "text": "other" + } + } + }, + "sr_geol_age_enum": { + "name": "sr_geol_age_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Archean": { + "text": "Archean" + }, + "Cambrian": { + "text": "Cambrian" + }, + "Carboniferous": { + "text": "Carboniferous" + }, + "Cenozoic": { + "text": "Cenozoic" + }, + "Cretaceous": { + "text": "Cretaceous" + }, + "Devonian": { + "text": "Devonian" + }, + "Jurassic": { + "text": "Jurassic" + }, + "Mesozoic": { + "text": "Mesozoic" + }, + "Neogene": { + "text": "Neogene" + }, + "Ordovician": { + "text": "Ordovician" + }, + "Paleogene": { + "text": "Paleogene" + }, + "Paleozoic": { + "text": "Paleozoic" + }, + "Permian": { + "text": "Permian" + }, + "Precambrian": { + "text": "Precambrian" + }, + "Proterozoic": { + "text": "Proterozoic" + }, + "Silurian": { + "text": "Silurian" + }, + "Triassic": { + "text": "Triassic" + }, + "other": { + "text": "other" + } + } + }, + "biotic_relationship_enum": { + "name": "biotic_relationship_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "free living": { + "text": "free living" + }, + "parasite": { + "text": "parasite" + }, + "commensal": { + "text": "commensal" + }, + "symbiont": { + "text": "symbiont" + } + } + }, + "fao_class_enum": { + "name": "fao_class_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Acrisols": { + "text": "Acrisols" + }, + "Andosols": { + "text": "Andosols" + }, + "Arenosols": { + "text": "Arenosols" + }, + "Cambisols": { + "text": "Cambisols" + }, + "Chernozems": { + "text": "Chernozems" + }, + "Ferralsols": { + "text": "Ferralsols" + }, + "Fluvisols": { + "text": "Fluvisols" + }, + "Gleysols": { + "text": "Gleysols" + }, + "Greyzems": { + "text": "Greyzems" + }, + "Gypsisols": { + "text": "Gypsisols" + }, + "Histosols": { + "text": "Histosols" + }, + "Kastanozems": { + "text": "Kastanozems" + }, + "Lithosols": { + "text": "Lithosols" + }, + "Luvisols": { + "text": "Luvisols" + }, + "Nitosols": { + "text": "Nitosols" + }, + "Phaeozems": { + "text": "Phaeozems" + }, + "Planosols": { + "text": "Planosols" + }, + "Podzols": { + "text": "Podzols" + }, + "Podzoluvisols": { + "text": "Podzoluvisols" + }, + "Rankers": { + "text": "Rankers" + }, + "Regosols": { + "text": "Regosols" + }, + "Rendzinas": { + "text": "Rendzinas" + }, + "Solonchaks": { + "text": "Solonchaks" + }, + "Solonetz": { + "text": "Solonetz" + }, + "Vertisols": { + "text": "Vertisols" + }, + "Yermosols": { + "text": "Yermosols" + } + } + }, + "cur_land_use_enum": { + "name": "cur_land_use_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "badlands": { + "text": "badlands" + }, + "cities": { + "text": "cities" + }, + "conifers": { + "text": "conifers", + "annotations": { + "originally": { + "tag": "originally", + "value": "conifers (e.g. pine,spruce,fir,cypress)" + } + }, + "examples": [ + { + "value": "cypress" + }, + { + "value": "fir" + }, + { + "value": "pine" + }, + { + "value": "spruce" + } + ] + }, + "crop trees": { + "text": "crop trees", + "annotations": { + "originally": { + "tag": "originally", + "value": "crop trees (nuts,fruit,christmas trees,nursery trees)" + } + }, + "examples": [ + { + "value": "christmas trees" + }, + { + "value": "fruit" + }, + { + "value": "nursery trees" + }, + { + "value": "nuts" + } + ] + }, + "farmstead": { + "text": "farmstead" + }, + "gravel": { + "text": "gravel" + }, + "hardwoods": { + "text": "hardwoods", + "annotations": { + "originally": { + "tag": "originally", + "value": "hardwoods (e.g. oak,hickory,elm,aspen)" + } + }, + "examples": [ + { + "value": "aspen" + }, + { + "value": "elm" + }, + { + "value": "hickory" + }, + { + "value": "oak" + } + ] + }, + "hayland": { + "text": "hayland" + }, + "horticultural plants": { + "text": "horticultural plants", + "annotations": { + "originally": { + "tag": "originally", + "value": "horticultural plants (e.g. tulips)" + } + }, + "examples": [ + { + "value": "tulips" + } + ] + }, + "industrial areas": { + "text": "industrial areas" + }, + "intermixed hardwood and conifers": { + "text": "intermixed hardwood and conifers" + }, + "marshlands": { + "text": "marshlands", + "annotations": { + "originally": { + "tag": "originally", + "value": "marshlands (grass,sedges,rushes)" + } + }, + "examples": [ + { + "value": "grass" + }, + { + "value": "rushes" + }, + { + "value": "sedgees" + } + ] + }, + "meadows": { + "text": "meadows", + "annotations": { + "originally": { + "tag": "originally", + "value": "meadows (grasses,alfalfa,fescue,bromegrass,timothy)" + } + }, + "examples": [ + { + "value": "alfalfa" + }, + { + "value": "bromegrass" + }, + { + "value": "fescue" + }, + { + "value": "grasses" + }, + { + "value": "timothy" + } + ] + }, + "mines/quarries": { + "text": "mines/quarries" + }, + "mudflats": { + "text": "mudflats" + }, + "oil waste areas": { + "text": "oil waste areas" + }, + "pastureland": { + "text": "pastureland", + "annotations": { + "originally": { + "tag": "originally", + "value": "pastureland (grasslands used for livestock grazing)" + } + }, + "comments": [ + "grasslands used for livestock grazing" + ] + }, + "permanent snow or ice": { + "text": "permanent snow or ice" + }, + "rainforest": { + "text": "rainforest", + "annotations": { + "originally": { + "tag": "originally", + "value": "rainforest (evergreen forest receiving greater than 406 cm annual rainfall)" + } + }, + "comments": [ + "evergreen forest receiving greater than 406 cm annual rainfall" + ] + }, + "rangeland": { + "text": "rangeland" + }, + "roads/railroads": { + "text": "roads/railroads" + }, + "rock": { + "text": "rock" + }, + "row crops": { + "text": "row crops" + }, + "saline seeps": { + "text": "saline seeps" + }, + "salt flats": { + "text": "salt flats" + }, + "sand": { + "text": "sand" + }, + "shrub crops": { + "text": "shrub crops", + "annotations": { + "originally": { + "tag": "originally", + "value": "shrub crops (blueberries,nursery ornamentals,filberts)" + } + }, + "examples": [ + { + "value": "blueberries" + }, + { + "value": "filberts" + }, + { + "value": "nursery ornamentals" + } + ] + }, + "shrub land": { + "text": "shrub land", + "annotations": { + "originally": { + "tag": "originally", + "value": "shrub land (e.g. mesquite,sage-brush,creosote bush,shrub oak,eucalyptus)" + } + }, + "examples": [ + { + "value": "creosote bush" + }, + { + "value": "eucalyptus" + }, + { + "value": "mesquite" + }, + { + "value": "sage-brush" + }, + { + "value": "shrub oak" + } + ] + }, + "small grains": { + "text": "small grains" + }, + "successional shrub land": { + "text": "successional shrub land", + "annotations": { + "originally": { + "tag": "originally", + "value": "successional shrub land (tree saplings,hazels,sumacs,chokecherry,shrub dogwoods,blackberries)" + } + }, + "examples": [ + { + "value": "blackberries" + }, + { + "value": "chokecherry" + }, + { + "value": "hazels" + }, + { + "value": "shrub dogwoods" + }, + { + "value": "sumacs" + }, + { + "value": "tree saplings" + } + ] + }, + "swamp": { + "text": "swamp", + "annotations": { + "originally": { + "tag": "originally", + "value": "swamp (permanent or semi-permanent water body dominated by woody plants)" + } + }, + "comments": [ + "permanent or semi-permanent water body dominated by woody plants" + ] + }, + "tropical": { + "text": "tropical", + "annotations": { + "originally": { + "tag": "originally", + "value": "tropical (e.g. mangrove,palms)" + } + }, + "examples": [ + { + "value": "mangrove" + }, + { + "value": "palms" + } + ] + }, + "tundra": { + "text": "tundra", + "annotations": { + "originally": { + "tag": "originally", + "value": "tundra (mosses,lichens)" + } + }, + "examples": [ + { + "value": "lichens" + }, + { + "value": "mosses" + } + ] + }, + "vegetable crops": { + "text": "vegetable crops" + }, + "vine crops": { + "text": "vine crops", + "annotations": { + "originally": { + "tag": "originally", + "value": "vine crops (grapes)" + } + }, + "examples": [ + { + "value": "grapes" + } + ] + } + } + }, + "soil_horizon_enum": { + "name": "soil_horizon_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "O horizon": { + "text": "O horizon" + }, + "A horizon": { + "text": "A horizon" + }, + "E horizon": { + "text": "E horizon" + }, + "B horizon": { + "text": "B horizon" + }, + "C horizon": { + "text": "C horizon" + }, + "R layer": { + "text": "R layer" + }, + "Permafrost": { + "text": "Permafrost" + }, + "M horizon": { + "text": "M horizon" + } + } + }, + "profile_position_enum": { + "name": "profile_position_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "summit": { + "text": "summit" + }, + "shoulder": { + "text": "shoulder" + }, + "backslope": { + "text": "backslope" + }, + "footslope": { + "text": "footslope" + }, + "toeslope": { + "text": "toeslope" + } + } + }, + "tillage_enum": { + "name": "tillage_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "drill": { + "text": "drill" + }, + "cutting disc": { + "text": "cutting disc" + }, + "ridge till": { + "text": "ridge till" + }, + "strip tillage": { + "text": "strip tillage" + }, + "zonal tillage": { + "text": "zonal tillage" + }, + "chisel": { + "text": "chisel" + }, + "tined": { + "text": "tined" + }, + "mouldboard": { + "text": "mouldboard" + }, + "disc plough": { + "text": "disc plough" + } + } + }, + "drainage_class_enum": { + "name": "drainage_class_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "very poorly": { + "text": "very poorly" + }, + "poorly": { + "text": "poorly" + }, + "somewhat poorly": { + "text": "somewhat poorly" + }, + "moderately well": { + "text": "moderately well" + }, + "well": { + "text": "well" + }, + "excessively drained": { + "text": "excessively drained" + } + } + }, + "samp_capt_status_enum": { + "name": "samp_capt_status_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "active surveillance in response to an outbreak": { + "text": "active surveillance in response to an outbreak" + }, + "active surveillance not initiated by an outbreak": { + "text": "active surveillance not initiated by an outbreak" + }, + "farm sample": { + "text": "farm sample" + }, + "market sample": { + "text": "market sample" + }, + "other": { + "text": "other" + } + } + }, + "samp_dis_stage_enum": { + "name": "samp_dis_stage_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "dissemination": { + "text": "dissemination" + }, + "growth and reproduction": { + "text": "growth and reproduction" + }, + "infection": { + "text": "infection" + }, + "inoculation": { + "text": "inoculation" + }, + "penetration": { + "text": "penetration" + }, + "other": { + "text": "other" + } + } + }, + "biol_stat_enum": { + "name": "biol_stat_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "wild": { + "text": "wild" + }, + "natural": { + "text": "natural" + }, + "semi-natural": { + "text": "semi-natural" + }, + "inbred line": { + "text": "inbred line" + }, + "breeder's line": { + "text": "breeder's line" + }, + "hybrid": { + "text": "hybrid" + }, + "clonal selection": { + "text": "clonal selection" + }, + "mutant": { + "text": "mutant" + } + } + }, + "growth_habit_enum": { + "name": "growth_habit_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "erect": { + "text": "erect" + }, + "semi-erect": { + "text": "semi-erect" + }, + "spreading": { + "text": "spreading" + }, + "prostrate": { + "text": "prostrate" + } + } + }, + "plant_sex_enum": { + "name": "plant_sex_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "Androdioecious": { + "text": "Androdioecious" + }, + "Androecious": { + "text": "Androecious" + }, + "Androgynous": { + "text": "Androgynous" + }, + "Androgynomonoecious": { + "text": "Androgynomonoecious" + }, + "Andromonoecious": { + "text": "Andromonoecious" + }, + "Bisexual": { + "text": "Bisexual" + }, + "Dichogamous": { + "text": "Dichogamous" + }, + "Diclinous": { + "text": "Diclinous" + }, + "Dioecious": { + "text": "Dioecious" + }, + "Gynodioecious": { + "text": "Gynodioecious" + }, + "Gynoecious": { + "text": "Gynoecious" + }, + "Gynomonoecious": { + "text": "Gynomonoecious" + }, + "Hermaphroditic": { + "text": "Hermaphroditic" + }, + "Imperfect": { + "text": "Imperfect" + }, + "Monoclinous": { + "text": "Monoclinous" + }, + "Monoecious": { + "text": "Monoecious" + }, + "Perfect": { + "text": "Perfect" + }, + "Polygamodioecious": { + "text": "Polygamodioecious" + }, + "Polygamomonoecious": { + "text": "Polygamomonoecious" + }, + "Polygamous": { + "text": "Polygamous" + }, + "Protandrous": { + "text": "Protandrous" + }, + "Protogynous": { + "text": "Protogynous" + }, + "Subandroecious": { + "text": "Subandroecious" + }, + "Subdioecious": { + "text": "Subdioecious" + }, + "Subgynoecious": { + "text": "Subgynoecious" + }, + "Synoecious": { + "text": "Synoecious" + }, + "Trimonoecious": { + "text": "Trimonoecious" + }, + "Trioecious": { + "text": "Trioecious" + }, + "Unisexual": { + "text": "Unisexual" + } + } + }, + "sediment_type_enum": { + "name": "sediment_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "biogenous": { + "text": "biogenous" + }, + "cosmogenous": { + "text": "cosmogenous" + }, + "hydrogenous": { + "text": "hydrogenous" + }, + "lithogenous": { + "text": "lithogenous" + } + } + }, + "tidal_stage_enum": { + "name": "tidal_stage_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "low tide": { + "text": "low tide" + }, + "ebb tide": { + "text": "ebb tide" + }, + "flood tide": { + "text": "flood tide" + }, + "high tide": { + "text": "high tide" + } + } + }, + "host_sex_enum": { + "name": "host_sex_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "female": { + "text": "female" + }, + "hermaphrodite": { + "text": "hermaphrodite" + }, + "male": { + "text": "male" + }, + "neuter": { + "text": "neuter" + } + } + }, + "analysis_type_enum": { + "name": "analysis_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "metabolomics": { + "text": "metabolomics" + }, + "metagenomics": { + "text": "metagenomics" + }, + "metaproteomics": { + "text": "metaproteomics" + }, + "metatranscriptomics": { + "text": "metatranscriptomics" + }, + "natural organic matter": { + "text": "natural organic matter" + } + } + }, + "dna_sample_format_enum": { + "name": "dna_sample_format_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "10 mM Tris-HCl": { + "text": "10 mM Tris-HCl" + }, + "DNAStable": { + "text": "DNAStable" + }, + "Ethanol": { + "text": "Ethanol" + }, + "Low EDTA TE": { + "text": "Low EDTA TE" + }, + "MDA reaction buffer": { + "text": "MDA reaction buffer" + }, + "PBS": { + "text": "PBS" + }, + "Pellet": { + "text": "Pellet" + }, + "RNAStable": { + "text": "RNAStable" + }, + "TE": { + "text": "TE" + }, + "Water": { + "text": "Water" + }, + "Gentegra-DNA": { + "text": "Gentegra-DNA" + }, + "Gentegra-RNA": { + "text": "Gentegra-RNA" + } + } + }, + "rna_sample_format_enum": { + "name": "rna_sample_format_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "10 mM Tris-HCl": { + "text": "10 mM Tris-HCl" + }, + "DNAStable": { + "text": "DNAStable" + }, + "Ethanol": { + "text": "Ethanol" + }, + "Low EDTA TE": { + "text": "Low EDTA TE" + }, + "MDA reaction buffer": { + "text": "MDA reaction buffer" + }, + "PBS": { + "text": "PBS" + }, + "Pellet": { + "text": "Pellet" + }, + "RNAStable": { + "text": "RNAStable" + }, + "TE": { + "text": "TE" + }, + "Water": { + "text": "Water" + }, + "Gentegra-DNA": { + "text": "Gentegra-DNA" + }, + "Gentegra-RNA": { + "text": "Gentegra-RNA" + } + } + }, + "sample_type_enum": { + "name": "sample_type_enum", + "from_schema": "https://example.com/nmdc_submission_schema", + "permissible_values": { + "soil": { + "text": "soil" + }, + "water_extract_soil": { + "text": "water_extract_soil" + } + } + } + }, + "slots": { + "air_data": { + "name": "air_data", + "description": "aggregation slot relating air data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "AirInterface", + "inlined": true, + "inlined_as_list": true + }, + "biofilm_data": { + "name": "biofilm_data", + "description": "aggregation slot relating biofilm data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "BiofilmInterface", + "inlined": true, + "inlined_as_list": true + }, + "built_env_data": { + "name": "built_env_data", + "description": "aggregation slot relating built_env data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "BuiltEnvInterface", + "inlined": true, + "inlined_as_list": true + }, + "emsl_data": { + "name": "emsl_data", + "description": "aggregation slot relating emsl data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "EmslInterface", + "inlined": true, + "inlined_as_list": true + }, + "hcr_cores_data": { + "name": "hcr_cores_data", + "description": "aggregation slot relating hcr_cores data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "HcrCoresInterface", + "inlined": true, + "inlined_as_list": true + }, + "hcr_fluids_swabs_data": { + "name": "hcr_fluids_swabs_data", + "description": "aggregation slot relating hcr_fluids_swabs data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "HcrFluidsSwabsInterface", + "inlined": true, + "inlined_as_list": true + }, + "host_associated_data": { + "name": "host_associated_data", + "description": "aggregation slot relating host_associated data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "HostAssociatedInterface", + "inlined": true, + "inlined_as_list": true + }, + "jgi_mg_data": { + "name": "jgi_mg_data", + "description": "aggregation slot relating jgi_mg data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "JgiMgInterface", + "inlined": true, + "inlined_as_list": true + }, + "jgi_mt_data": { + "name": "jgi_mt_data", + "description": "aggregation slot relating jgi_mt data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "JgiMtInterface", + "inlined": true, + "inlined_as_list": true + }, + "misc_envs_data": { + "name": "misc_envs_data", + "description": "aggregation slot relating misc_envs data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "MiscEnvsInterface", + "inlined": true, + "inlined_as_list": true + }, + "plant_associated_data": { + "name": "plant_associated_data", + "description": "aggregation slot relating plant_associated data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "PlantAssociatedInterface", + "inlined": true, + "inlined_as_list": true + }, + "sediment_data": { + "name": "sediment_data", + "description": "aggregation slot relating sediment data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "SedimentInterface", + "inlined": true, + "inlined_as_list": true + }, + "soil_data": { + "name": "soil_data", + "description": "aggregation slot relating soil data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "SoilInterface", + "inlined": true, + "inlined_as_list": true + }, + "wastewater_sludge_data": { + "name": "wastewater_sludge_data", + "description": "aggregation slot relating wastewater_sludge data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "WastewaterSludgeInterface", + "inlined": true, + "inlined_as_list": true + }, + "water_data": { + "name": "water_data", + "description": "aggregation slot relating water data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "range": "WaterInterface", + "inlined": true, + "inlined_as_list": true + }, + "dh_section": { + "name": "dh_section", + "description": "dh_section grouping slot", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "emsl_section": { + "name": "emsl_section", + "description": "placeholder", + "title": "EMSL", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 2, + "is_a": "dh_section" + }, + "jgi_metagenomics_section": { + "name": "jgi_metagenomics_section", + "description": "placeholder", + "title": "JGI-Metagenomics", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 3, + "is_a": "dh_section" + }, + "jgi_metatranscriptomics_section": { + "name": "jgi_metatranscriptomics_section", + "description": "placeholder", + "title": "JGI-Metatranscriptomics", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 4, + "is_a": "dh_section" + }, + "mixs_core_section": { + "name": "mixs_core_section", + "description": "placeholder", + "title": "MIxS Core", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 10, + "is_a": "dh_section" + }, + "mixs_inspired_section": { + "name": "mixs_inspired_section", + "description": "placeholder", + "title": "MIxS Inspired", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 7, + "is_a": "dh_section" + }, + "mixs_investigation_section": { + "name": "mixs_investigation_section", + "description": "placeholder", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 8, + "is_a": "dh_section" + }, + "mixs_modified_section": { + "name": "mixs_modified_section", + "description": "placeholder", + "title": "MIxS (modified)", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 6, + "is_a": "dh_section" + }, + "mixs_nassf_section": { + "name": "mixs_nassf_section", + "description": "placeholder", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 9, + "is_a": "dh_section" + }, + "mixs_section": { + "name": "mixs_section", + "description": "placeholder", + "title": "MIxS", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "is_a": "dh_section" + }, + "sample_id_section": { + "name": "sample_id_section", + "description": "placeholder", + "title": "Sample ID", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 1, + "is_a": "dh_section" + }, + "abs_air_humidity": { + "name": "abs_air_humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram, kilogram per kilogram, kilogram, pound" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Actual mass of water vapor - mh20 - present in the air water vapor mixture", + "title": "absolute air humidity", + "examples": [ + { + "value": "9 gram per gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "absolute air humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000122", + "multivalued": false, + "range": "string" + }, + "add_recov_method": { + "name": "add_recov_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "secondary and tertiary recovery methods and start date", + "examples": [ + { + "value": "Polymer Addition;2018-06-21T14:30Z" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "secondary and tertiary recovery methods and start date" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001009", + "multivalued": false, + "range": "string" + }, + "additional_info": { + "name": "additional_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary", + "title": "additional info", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "additional info" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000300", + "multivalued": false, + "range": "string" + }, + "address": { + "name": "address", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The street name and building number where the sampling occurred.", + "title": "address", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "address" + ], + "is_a": "core field", + "string_serialization": "{integer}{text}", + "slot_uri": "MIXS:0000218", + "multivalued": false, + "range": "string" + }, + "adj_room": { + "name": "adj_room", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of rooms (room number, room name) immediately adjacent to the sampling room", + "title": "adjacent rooms", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "adjacent rooms" + ], + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000219", + "multivalued": false, + "range": "string" + }, + "aero_struc": { + "name": "aero_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together", + "title": "aerospace structure", + "examples": [ + { + "value": "plane" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "aerospace structure" + ], + "is_a": "core field", + "string_serialization": "[plane|glider]", + "slot_uri": "MIXS:0000773", + "multivalued": false, + "range": "string" + }, + "agrochem_addition": { + "name": "agrochem_addition", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "agrochemical name;agrochemical amount;timestamp" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Addition of fertilizers, pesticides, etc. - amount and time of applications", + "title": "history/agrochemical additions", + "examples": [ + { + "value": "roundup;5 milligram per liter;2018-06-21" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/agrochemical additions" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{timestamp}", + "slot_uri": "MIXS:0000639", + "multivalued": false, + "range": "string" + }, + "air_PM_concen": { + "name": "air_PM_concen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particulate matter name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrograms per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM", + "title": "air particulate matter concentration", + "examples": [ + { + "value": "PM2.5;10 microgram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "air particulate matter concentration" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000108", + "multivalued": false, + "range": "string" + }, + "air_temp": { + "name": "air_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature of the air at the time of sampling", + "title": "air temperature", + "examples": [ + { + "value": "20 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "air temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000124", + "multivalued": false, + "range": "string" + }, + "air_temp_regm": { + "name": "air_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "temperature value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens", + "title": "air temperature regimen", + "examples": [ + { + "value": "25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "air temperature regimen" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000551", + "multivalued": false, + "range": "string" + }, + "al_sat": { + "name": "al_sat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Aluminum saturation (esp. For tropical soils)", + "title": "extreme_unusual_properties/Al saturation", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "extreme_unusual_properties/Al saturation" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000607", + "multivalued": false, + "range": "string" + }, + "al_sat_meth": { + "name": "al_sat_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or URL" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining Al saturation", + "title": "extreme_unusual_properties/Al saturation method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "extreme_unusual_properties/Al saturation method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000324", + "multivalued": false, + "range": "string" + }, + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "alkalinity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "range": "string" + }, + "alkalinity_method": { + "name": "alkalinity_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method used for alkalinity measurement", + "title": "alkalinity method", + "examples": [ + { + "value": "titration" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "alkalinity method" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000298", + "multivalued": false, + "range": "string" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "alkyl diethers" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "range": "string" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "altitude" + ], + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "range": "string" + }, + "aminopept_act": { + "name": "aminopept_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of aminopeptidase activity", + "title": "aminopeptidase activity", + "examples": [ + { + "value": "0.269 mole per liter per hour" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "aminopeptidase activity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000172", + "multivalued": false, + "range": "string" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ammonium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "range": "string" + }, + "ammonium_nitrogen": { + "name": "ammonium_nitrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium nitrogen in the sample", + "title": "ammonium nitrogen", + "examples": [ + { + "value": "2.3 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "ammonium_nitrogen", + "NH4-N" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "amount_light": { + "name": "amount_light", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux, lumens per square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The unit of illuminance and luminous emittance, measuring luminous flux per unit area", + "title": "amount of light", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "amount of light" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000140", + "multivalued": false, + "range": "string" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "slot_group": "Sample ID", + "range": "analysis_type_enum", + "recommended": true + }, + "ances_data": { + "name": "ances_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)", + "title": "ancestral data", + "examples": [ + { + "value": "A/3*B" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ancestral data" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000247", + "multivalued": false, + "range": "string" + }, + "annual_precpt": { + "name": "annual_precpt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "mean annual precipitation", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean annual precipitation" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000644", + "multivalued": false, + "range": "string" + }, + "annual_temp": { + "name": "annual_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean annual temperature", + "title": "mean annual temperature", + "examples": [ + { + "value": "12.5 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean annual temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000642", + "multivalued": false, + "range": "string" + }, + "antibiotic_regm": { + "name": "antibiotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "antibiotic name;antibiotic amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens", + "title": "antibiotic regimen", + "examples": [ + { + "value": "penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "antibiotic regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000553", + "multivalued": false, + "range": "string" + }, + "api": { + "name": "api", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degrees API" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)", + "title": "API gravity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "API gravity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000157", + "multivalued": false, + "range": "string" + }, + "arch_struc": { + "name": "arch_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "An architectural structure is a human-made, free-standing, immobile outdoor construction", + "title": "architectural structure", + "examples": [ + { + "value": "shed" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "architectural structure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000774", + "multivalued": false, + "range": "arch_struc_enum" + }, + "aromatics_pc": { + "name": "aromatics_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "aromatics wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "aromatics wt%" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000133", + "multivalued": false, + "range": "string" + }, + "asphaltenes_pc": { + "name": "asphaltenes_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "asphaltenes wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "asphaltenes wt%" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000135", + "multivalued": false, + "range": "string" + }, + "atmospheric_data": { + "name": "atmospheric_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "atmospheric data name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Measurement of atmospheric data; can include multiple data", + "title": "atmospheric data", + "examples": [ + { + "value": "wind speed;9 knots" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "atmospheric data" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0001097", + "multivalued": false, + "range": "string" + }, + "avg_dew_point": { + "name": "avg_dew_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day", + "title": "average dew point", + "examples": [ + { + "value": "25.5 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "average dew point" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000141", + "multivalued": false, + "range": "string" + }, + "avg_occup": { + "name": "avg_occup", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room.", + "title": "average daily occupancy", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "average daily occupancy" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000775", + "multivalued": false, + "range": "string" + }, + "avg_temp": { + "name": "avg_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day", + "title": "average temperature", + "examples": [ + { + "value": "12.5 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "average temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000142", + "multivalued": false, + "range": "string" + }, + "bac_prod": { + "name": "bac_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Bacterial production in the water column measured by isotope uptake", + "title": "bacterial production", + "examples": [ + { + "value": "5 milligram per cubic meter per day" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bacterial production" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000683", + "multivalued": false, + "range": "string" + }, + "bac_resp": { + "name": "bac_resp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter per day, micromole oxygen per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial respiration in the water column", + "title": "bacterial respiration", + "examples": [ + { + "value": "300 micromole oxygen per liter per hour" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bacterial respiration" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000684", + "multivalued": false, + "range": "string" + }, + "bacteria_carb_prod": { + "name": "bacteria_carb_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial carbon production", + "title": "bacterial carbon production", + "examples": [ + { + "value": "2.53 microgram per liter per hour" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bacterial carbon production" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000173", + "multivalued": false, + "range": "string" + }, + "barometric_press": { + "name": "barometric_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millibar" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Force per unit area exerted against a surface by the weight of air above that surface", + "title": "barometric pressure", + "examples": [ + { + "value": "5 millibar" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "barometric pressure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000096", + "multivalued": false, + "range": "string" + }, + "basin": { + "name": "basin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the basin (e.g. Campos)", + "title": "basin name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "basin name" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000290", + "multivalued": false, + "range": "string" + }, + "bathroom_count": { + "name": "bathroom_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of bathrooms in the building", + "title": "bathroom count", + "examples": [ + { + "value": "1" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bathroom count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000776", + "multivalued": false, + "range": "string" + }, + "bedroom_count": { + "name": "bedroom_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of bedrooms in the building", + "title": "bedroom count", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bedroom count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000777", + "multivalued": false, + "range": "string" + }, + "benzene": { + "name": "benzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of benzene in the sample", + "title": "benzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "benzene" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000153", + "multivalued": false, + "range": "string" + }, + "biochem_oxygen_dem": { + "name": "biochem_oxygen_dem", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period", + "title": "biochemical oxygen demand", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biochemical oxygen demand" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000653", + "multivalued": false, + "range": "string" + }, + "biocide": { + "name": "biocide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;name;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of biocides (commercial name of product and supplier) and date of administration", + "title": "biocide administration", + "examples": [ + { + "value": "ALPHA 1427;Baker Hughes;2008-01-23" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biocide administration" + ], + "is_a": "core field", + "string_serialization": "{text};{text};{timestamp}", + "slot_uri": "MIXS:0001011", + "multivalued": false, + "range": "string" + }, + "biocide_admin_method": { + "name": "biocide_admin_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;frequency;duration;duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; weekly; 4 hr; 3 days)", + "title": "biocide administration method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biocide administration method" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration};{duration}", + "slot_uri": "MIXS:0000456", + "multivalued": false, + "range": "string" + }, + "biol_stat": { + "name": "biol_stat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The level of genome modification.", + "title": "biological status", + "examples": [ + { + "value": "natural" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biological status" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000858", + "multivalued": false, + "range": "biol_stat_enum" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biomass" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "range": "string" + }, + "biotic_regm": { + "name": "biotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.", + "title": "biotic regimen", + "examples": [ + { + "value": "sample inoculated with Rhizobium spp. Culture" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "biotic regimen" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001038", + "multivalued": false, + "range": "string" + }, + "biotic_relationship": { + "name": "biotic_relationship", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + } + }, + "description": "Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object", + "title": "observed biotic relationship", + "examples": [ + { + "value": "free living" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "observed biotic relationship" + ], + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000028", + "multivalued": false, + "range": "biotic_relationship_enum" + }, + "bishomohopanol": { + "name": "bishomohopanol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, microgram per gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bishomohopanol", + "title": "bishomohopanol", + "examples": [ + { + "value": "14 microgram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bishomohopanol" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000175", + "multivalued": false, + "range": "string" + }, + "blood_press_diast": { + "name": "blood_press_diast", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting diastolic blood pressure, measured as mm mercury", + "title": "host blood pressure diastolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host blood pressure diastolic" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000258", + "multivalued": false, + "range": "string" + }, + "blood_press_syst": { + "name": "blood_press_syst", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting systolic blood pressure, measured as mm mercury", + "title": "host blood pressure systolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host blood pressure systolic" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000259", + "multivalued": false, + "range": "string" + }, + "bromide": { + "name": "bromide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bromide", + "title": "bromide", + "examples": [ + { + "value": "0.05 parts per million" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "bromide" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000176", + "multivalued": false, + "range": "string" + }, + "build_docs": { + "name": "build_docs", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building design, construction and operation documents", + "title": "design, construction, and operation documents", + "examples": [ + { + "value": "maintenance plans" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "design, construction, and operation documents" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000787", + "multivalued": false, + "range": "build_docs_enum" + }, + "build_occup_type": { + "name": "build_occup_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The primary function for which a building or discrete part of a building is intended to be used", + "title": "building occupancy type", + "examples": [ + { + "value": "market" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "building occupancy type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000761", + "multivalued": true, + "range": "build_occup_type_enum" + }, + "building_setting": { + "name": "building_setting", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A location (geography) where a building is set", + "title": "building setting", + "examples": [ + { + "value": "rural" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "building setting" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000768", + "multivalued": false, + "range": "building_setting_enum" + }, + "built_struc_age": { + "name": "built_struc_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The age of the built structure since construction", + "title": "built structure age", + "examples": [ + { + "value": "15" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "built structure age" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000145", + "multivalued": false, + "range": "string" + }, + "built_struc_set": { + "name": "built_struc_set", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The characterization of the location of the built structure as high or low human density", + "title": "built structure setting", + "examples": [ + { + "value": "rural" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "built structure setting" + ], + "is_a": "core field", + "string_serialization": "[urban|rural]", + "slot_uri": "MIXS:0000778", + "multivalued": false, + "range": "string" + }, + "built_struc_type": { + "name": "built_struc_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A physical structure that is a body or assemblage of bodies in space to form a system capable of supporting loads", + "title": "built structure type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "built structure type" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000721", + "multivalued": false, + "range": "string" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "calcium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "range": "string" + }, + "carb_dioxide": { + "name": "carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon dioxide (gas) amount or concentration at the time of sampling", + "title": "carbon dioxide", + "examples": [ + { + "value": "410 parts per million" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "carbon dioxide" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000097", + "multivalued": false, + "range": "string" + }, + "carb_monoxide": { + "name": "carb_monoxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon monoxide (gas) amount or concentration at the time of sampling", + "title": "carbon monoxide", + "examples": [ + { + "value": "0.1 parts per million" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "carbon monoxide" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000098", + "multivalued": false, + "range": "string" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "carbon/nitrogen ratio" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "range": "string" + }, + "ceil_area": { + "name": "ceil_area", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The area of the ceiling space within the room", + "title": "ceiling area", + "examples": [ + { + "value": "25 square meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling area" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000148", + "multivalued": false, + "range": "string" + }, + "ceil_cond": { + "name": "ceil_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the ceiling at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas", + "title": "ceiling condition", + "examples": [ + { + "value": "damaged" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000779", + "multivalued": false, + "range": "ceil_cond_enum" + }, + "ceil_finish_mat": { + "name": "ceil_finish_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material used to finish a ceiling", + "title": "ceiling finish material", + "examples": [ + { + "value": "stucco" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling finish material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000780", + "multivalued": false, + "range": "ceil_finish_mat_enum" + }, + "ceil_struc": { + "name": "ceil_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The construction format of the ceiling", + "title": "ceiling structure", + "examples": [ + { + "value": "concrete" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling structure" + ], + "is_a": "core field", + "string_serialization": "[wood frame|concrete]", + "slot_uri": "MIXS:0000782", + "multivalued": false, + "range": "string" + }, + "ceil_texture": { + "name": "ceil_texture", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The feel, appearance, or consistency of a ceiling surface", + "title": "ceiling texture", + "examples": [ + { + "value": "popcorn" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling texture" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000783", + "multivalued": false, + "range": "ceil_texture_enum" + }, + "ceil_thermal_mass": { + "name": "ceil_thermal_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "joule per degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The ability of the ceiling to provide inertia against temperature fluctuations. Generally this means concrete that is exposed. A metal deck that supports a concrete slab will act thermally as long as it is exposed to room air flow", + "title": "ceiling thermal mass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling thermal mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000143", + "multivalued": false, + "range": "string" + }, + "ceil_type": { + "name": "ceil_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of ceiling according to the ceiling's appearance or construction", + "title": "ceiling type", + "examples": [ + { + "value": "coffered" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000784", + "multivalued": false, + "range": "ceil_type_enum" + }, + "ceil_water_mold": { + "name": "ceil_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on the ceiling", + "title": "ceiling signs of water/mold", + "examples": [ + { + "value": "presence of mold visible" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ceiling signs of water/mold" + ], + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000781", + "multivalued": false, + "range": "string" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11T20:00Z" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chemical administration" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "range": "string" + }, + "chem_mutagen": { + "name": "chem_mutagen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mutagen name;mutagen amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens", + "title": "chemical mutagen", + "examples": [ + { + "value": "nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chemical mutagen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000555", + "multivalued": false, + "range": "string" + }, + "chem_oxygen_dem": { + "name": "chem_oxygen_dem", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite", + "title": "chemical oxygen demand", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chemical oxygen demand" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000656", + "multivalued": false, + "range": "string" + }, + "chem_treat_method": { + "name": "chem_treat_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;frequency;duration;duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method of chemical administration(dose, frequency, duration, time elapsed between administration and sampling) (e.g. 50 mg/l; twice a week; 1 hr; 0 days)", + "title": "chemical treatment method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chemical treatment method" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration};{duration};{duration}", + "slot_uri": "MIXS:0000457", + "multivalued": false, + "range": "string" + }, + "chem_treatment": { + "name": "chem_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;name;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of chemical compounds administered upstream the sampling location where sampling occurred (e.g. Glycols, H2S scavenger, corrosion and scale inhibitors, demulsifiers, and other production chemicals etc.). The commercial name of the product and name of the supplier should be provided. The date of administration should also be included", + "title": "chemical treatment", + "examples": [ + { + "value": "ACCENT 1125;DOW;2010-11-17" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chemical treatment" + ], + "is_a": "core field", + "string_serialization": "{text};{text};{timestamp}", + "slot_uri": "MIXS:0001012", + "multivalued": false, + "range": "string" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chloride" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "range": "string" + }, + "chlorophyll": { + "name": "chlorophyll", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter, microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chlorophyll", + "title": "chlorophyll", + "examples": [ + { + "value": "5 milligram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "chlorophyll" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000177", + "multivalued": false, + "range": "string" + }, + "climate_environment": { + "name": "climate_environment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "climate name;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates", + "title": "climate environment", + "examples": [ + { + "value": "tropical climate;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "climate environment" + ], + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001040", + "multivalued": false, + "range": "string" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The time of sampling, either as an instance (single point in time) or interval. In case no exact time is available, the date/time can be right truncated i.e. all of these are valid times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008; Except: 2008-01; 2008 all are ISO8601 compliant", + "title": "collection date", + "examples": [ + { + "value": "2018-05-11T10:00:00+01:00; 2018-05-11" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "collection date" + ], + "is_a": "environment field", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "range": "string" + }, + "collection_date_inc": { + "name": "collection_date_inc", + "description": "Date the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 2, + "string_serialization": "{date, arbitrary precision}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "collection_time": { + "name": "collection_time", + "description": "The time of sampling, either as an instance (single point) or interval.", + "title": "collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 1, + "string_serialization": "{time, seconds optional}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "collection_time_inc": { + "name": "collection_time_inc", + "description": "Time the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 3, + "string_serialization": "{time, seconds optional}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "conduc": { + "name": "conduc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliSiemens per centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Electrical conductivity of water", + "title": "conductivity", + "examples": [ + { + "value": "10 milliSiemens per centimeter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "conductivity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000692", + "multivalued": false, + "range": "string" + }, + "cool_syst_id": { + "name": "cool_syst_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "unique identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The cooling system identifier", + "title": "cooling system identifier", + "examples": [ + { + "value": "12345" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "cooling system identifier" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000785", + "multivalued": false, + "range": "string" + }, + "crop_rotation": { + "name": "crop_rotation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "crop rotation status;schedule" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not crop is rotated, and if yes, rotation schedule", + "title": "history/crop rotation", + "examples": [ + { + "value": "yes;R2/2017-01-01/2018-12-31/P6M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/crop rotation" + ], + "is_a": "core field", + "string_serialization": "{boolean};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000318", + "multivalued": false, + "range": "string" + }, + "cult_root_med": { + "name": "cult_root_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name, PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors.", + "title": "culture rooting medium", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "culture rooting medium" + ], + "is_a": "core field", + "string_serialization": "{text}|{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001041", + "multivalued": false, + "range": "string" + }, + "cur_land_use": { + "name": "cur_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Present state of sample site", + "title": "current land use", + "examples": [ + { + "value": "conifers" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "current land use" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001080", + "multivalued": false, + "range": "cur_land_use_enum" + }, + "cur_vegetation": { + "name": "cur_vegetation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "current vegetation type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Vegetation classification from one or more standard classification systems, or agricultural crop", + "title": "current vegetation", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "current vegetation" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000312", + "multivalued": false, + "range": "string" + }, + "cur_vegetation_meth": { + "name": "cur_vegetation_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in vegetation classification", + "title": "current vegetation method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "current vegetation method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000314", + "multivalued": false, + "range": "string" + }, + "date_last_rain": { + "name": "date_last_rain", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The date of the last time it rained", + "title": "date last rain", + "examples": [ + { + "value": "2018-05-11:T14:30Z" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "date last rain" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000786", + "multivalued": false, + "range": "string" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "density" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "range": "string" + }, + "depos_env": { + "name": "depos_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "depositional environment", + "examples": [ + { + "value": "Continental - Alluvial" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "depositional environment" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000992", + "multivalued": false, + "range": "depos_env_enum" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth", + "examples": [ + { + "value": "10 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "depth" + ], + "is_a": "environment field", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "range": "string" + }, + "dew_point": { + "name": "dew_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The temperature to which a given parcel of humid air must be cooled, at constant barometric pressure, for water vapor to condense into water.", + "title": "dew point", + "examples": [ + { + "value": "22 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dew point" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000129", + "multivalued": false, + "range": "string" + }, + "diether_lipids": { + "name": "diether_lipids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diether lipid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of diether lipids; can include multiple types of diether lipids", + "title": "diether lipids", + "examples": [ + { + "value": "0.2 nanogram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "diether lipids" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000178", + "multivalued": false, + "range": "string" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved carbon dioxide" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "range": "string" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved hydrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "range": "string" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved inorganic carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "range": "string" + }, + "diss_inorg_nitro": { + "name": "diss_inorg_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved inorganic nitrogen", + "title": "dissolved inorganic nitrogen", + "examples": [ + { + "value": "761 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved inorganic nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000698", + "multivalued": false, + "range": "string" + }, + "diss_inorg_phosp": { + "name": "diss_inorg_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved inorganic phosphorus in the sample", + "title": "dissolved inorganic phosphorus", + "examples": [ + { + "value": "56.5 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved inorganic phosphorus" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000106", + "multivalued": false, + "range": "string" + }, + "diss_iron": { + "name": "diss_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved iron in the sample", + "title": "dissolved iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved iron" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000139", + "multivalued": false, + "range": "string" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved organic carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "range": "string" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved organic nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "range": "string" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved oxygen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "range": "string" + }, + "diss_oxygen_fluid": { + "name": "diss_oxygen_fluid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).", + "title": "dissolved oxygen in fluids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "dissolved oxygen in fluids" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000438", + "multivalued": false, + "range": "string" + }, + "dna_absorb1": { + "name": "dna_absorb1", + "description": "260/280 measurement of DNA sample purity", + "title": "DNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 7, + "string_serialization": "{float}", + "slot_group": "JGI-Metagenomics", + "range": "float", + "recommended": true + }, + "dna_absorb2": { + "name": "dna_absorb2", + "description": "260/230 measurement of DNA sample purity", + "title": "DNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 8, + "string_serialization": "{float}", + "slot_group": "JGI-Metagenomics", + "range": "float", + "recommended": true + }, + "dna_concentration": { + "name": "dna_concentration", + "title": "DNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "string_serialization": "{float}", + "slot_group": "JGI-Metagenomics", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "dna_cont_type": { + "name": "dna_cont_type", + "description": "Tube or plate (96-well)", + "title": "DNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 10, + "slot_group": "JGI-Metagenomics", + "range": "JgiContTypeEnum", + "recommended": true + }, + "dna_cont_well": { + "name": "dna_cont_well", + "title": "DNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "slot_group": "JGI-Metagenomics", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "dna_container_id": { + "name": "dna_container_id", + "title": "DNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_dnase": { + "name": "dna_dnase", + "title": "DNase treatment DNA", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 13, + "slot_group": "JGI-Metagenomics", + "range": "YesNoEnum", + "recommended": true + }, + "dna_isolate_meth": { + "name": "dna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "DNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 16, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_project_contact": { + "name": "dna_project_contact", + "title": "DNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 18, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_samp_id": { + "name": "dna_samp_id", + "title": "DNA sample ID", + "todos": [ + "Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled?" + ], + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 3, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_sample_format": { + "name": "dna_sample_format", + "description": "Solution in which the DNA sample has been suspended", + "title": "DNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 12, + "slot_group": "JGI-Metagenomics", + "range": "dna_sample_format_enum", + "recommended": true + }, + "dna_sample_name": { + "name": "dna_sample_name", + "description": "Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "DNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 4, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_seq_project": { + "name": "dna_seq_project", + "title": "DNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 1, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_seq_project_name": { + "name": "dna_seq_project_name", + "title": "DNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metagenomics" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 2, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_seq_project_pi": { + "name": "dna_seq_project_pi", + "title": "DNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 17, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "dna_volume": { + "name": "dna_volume", + "title": "DNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 6, + "string_serialization": "{float}", + "slot_group": "JGI-Metagenomics", + "range": "float", + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "dnase_rna": { + "name": "dnase_rna", + "title": "DNase treated", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 13, + "slot_group": "JGI-Metatranscriptomics", + "range": "YesNoEnum", + "recommended": true + }, + "door_comp_type": { + "name": "door_comp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The composite type of the door", + "title": "door type, composite", + "examples": [ + { + "value": "revolving" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door type, composite" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000795", + "multivalued": false, + "range": "door_comp_type_enum" + }, + "door_cond": { + "name": "door_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The phsical condition of the door", + "title": "door condition", + "examples": [ + { + "value": "new" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000788", + "multivalued": false, + "range": "door_cond_enum" + }, + "door_direct": { + "name": "door_direct", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The direction the door opens", + "title": "door direction of opening", + "examples": [ + { + "value": "inward" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door direction of opening" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000789", + "multivalued": false, + "range": "door_direct_enum" + }, + "door_loc": { + "name": "door_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative location of the door in the room", + "title": "door location", + "examples": [ + { + "value": "north" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000790", + "multivalued": false, + "range": "door_loc_enum" + }, + "door_mat": { + "name": "door_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The material the door is composed of", + "title": "door material", + "examples": [ + { + "value": "wood" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000791", + "multivalued": false, + "range": "door_mat_enum" + }, + "door_move": { + "name": "door_move", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of movement of the door", + "title": "door movement", + "examples": [ + { + "value": "swinging" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door movement" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000792", + "multivalued": false, + "range": "door_move_enum" + }, + "door_size": { + "name": "door_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The size of the door", + "title": "door area or size", + "examples": [ + { + "value": "2.5 square meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door area or size" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000158", + "multivalued": false, + "range": "string" + }, + "door_type": { + "name": "door_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of door material", + "title": "door type", + "examples": [ + { + "value": "wooden" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000794", + "multivalued": false, + "range": "door_type_enum" + }, + "door_type_metal": { + "name": "door_type_metal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of metal door", + "title": "door type, metal", + "examples": [ + { + "value": "hollow" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door type, metal" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000796", + "multivalued": false, + "range": "door_type_metal_enum" + }, + "door_type_wood": { + "name": "door_type_wood", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of wood door", + "title": "door type, wood", + "examples": [ + { + "value": "battened" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door type, wood" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000797", + "multivalued": false, + "range": "door_type_wood_enum" + }, + "door_water_mold": { + "name": "door_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on a door", + "title": "door signs of water/mold", + "examples": [ + { + "value": "presence of mold visible" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "door signs of water/mold" + ], + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000793", + "multivalued": false, + "range": "string" + }, + "down_par": { + "name": "down_par", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microEinstein per square meter per second, microEinstein per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Visible waveband radiance and irradiance measurements in the water column", + "title": "downward PAR", + "examples": [ + { + "value": "28.71 microEinstein per square meter per second" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "downward PAR" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000703", + "multivalued": false, + "range": "string" + }, + "drainage_class": { + "name": "drainage_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Drainage classification from a standard system such as the USDA system", + "title": "drainage classification", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "drainage classification" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001085", + "multivalued": false, + "range": "drainage_class_enum" + }, + "drawings": { + "name": "drawings", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents", + "title": "drawings", + "examples": [ + { + "value": "sketch" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "drawings" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000798", + "multivalued": false, + "range": "drawings_enum" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "is_a": "gold_path_field" + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "is_a": "gold_path_field" + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "is_a": "gold_path_field" + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "is_a": "gold_path_field" + }, + "efficiency_percent": { + "name": "efficiency_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of volatile solids removed from the anaerobic digestor", + "title": "efficiency percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "efficiency percent" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000657", + "multivalued": false, + "range": "string" + }, + "elev": { + "name": "elev", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "elevation" + ], + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "range": "string" + }, + "elevator": { + "name": "elevator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of elevators within the built structure", + "title": "elevator count", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "elevator count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000799", + "multivalued": false, + "range": "string" + }, + "emsl_store_temp": { + "name": "emsl_store_temp", + "description": "The temperature at which the sample should be stored upon delivery to EMSL", + "title": "EMSL sample storage temperature, deg. C", + "todos": [ + "add 'see_alsos' with link to NEXUS info" + ], + "comments": [ + "Enter a temperature in celsius. Numeric portion only." + ], + "examples": [ + { + "value": "-80" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 4, + "string_serialization": "{float}", + "slot_group": "EMSL", + "recommended": true + }, + "emulsions": { + "name": "emulsions", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "emulsion name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types", + "title": "emulsions", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "emulsions" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000660", + "multivalued": false, + "range": "string" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "The major environment type(s) where the sample was collected. Recommend subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one or more pipes." + } + }, + "description": "Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS", + "title": "broad-scale environmental context", + "examples": [ + { + "value": "oceanic epipelagic zone biome [ENVO:01000033] for annotating a water sample from the photic zone in middle of the Atlantic Ocean" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "broad-scale environmental context" + ], + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "range": "string" + }, + "env_local_scale": { + "name": "env_local_scale", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Environmental entities having causal influences upon the entity at time of sampling." + } + }, + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "examples": [ + { + "value": "litter layer [ENVO:01000338]; Annotating a pooled sample taken from various vegetation layers in a forest consider: canopy [ENVO:00000047]|herb and fern layer [ENVO:01000337]|litter layer [ENVO:01000338]|understory [01000335]|shrub layer [ENVO:01000336]." + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "local environmental context" + ], + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "range": "string" + }, + "env_medium": { + "name": "env_medium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "The material displaced by the entity at time of sampling. Recommend subclasses of environmental material [ENVO:00010483]." + } + }, + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "examples": [ + { + "value": "soil [ENVO:00001998]; Annotating a fish swimming in the upper 100 m of the Atlantic Ocean, consider: ocean water [ENVO:00002151]. Example: Annotating a duck on a pond consider: pond water [ENVO:00002228]|air [ENVO_00002005]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "environmental medium" + ], + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "range": "string" + }, + "env_package": { + "name": "env_package", + "description": "MIxS extension for reporting of measurements and observations obtained from one or more of the environments where the sample was obtained. All environmental packages listed here are further defined in separate subtables. By giving the name of the environmental package, a selection of fields can be made from the subtables and can be reported", + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "environmental package" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "escalator": { + "name": "escalator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of escalators within the built structure", + "title": "escalator count", + "examples": [ + { + "value": "4" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "escalator count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000800", + "multivalued": false, + "range": "string" + }, + "ethylbenzene": { + "name": "ethylbenzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ethylbenzene in the sample", + "title": "ethylbenzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ethylbenzene" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000155", + "multivalued": false, + "range": "string" + }, + "exp_duct": { + "name": "exp_duct", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of exposed ductwork in the room", + "title": "exposed ductwork", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "exposed ductwork" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000144", + "multivalued": false, + "range": "string" + }, + "exp_pipe": { + "name": "exp_pipe", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exposed pipes in the room", + "title": "exposed pipes", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "exposed pipes" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000220", + "multivalued": false, + "range": "string" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "experimental factor" + ], + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "range": "string" + }, + "experimental_factor_other": { + "name": "experimental_factor_other", + "description": "Other details about your sample that you feel can't be accurately represented in the available columns.", + "title": "experimental factor- other", + "comments": [ + "This slot accepts open-ended text about your sample.", + "We recommend using key:value pairs.", + "Provided pairs will be considered for inclusion as future slots/terms in this data collection template." + ], + "examples": [ + { + "value": "experimental treatment: value" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:experimental_factor|additional_info" + ], + "rank": 7, + "string_serialization": "{text}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "ext_door": { + "name": "ext_door", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exterior doors in the built structure", + "title": "exterior door count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "exterior door count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000170", + "multivalued": false, + "range": "string" + }, + "ext_wall_orient": { + "name": "ext_wall_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The orientation of the exterior wall", + "title": "orientations of exterior wall", + "examples": [ + { + "value": "northwest" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "orientations of exterior wall" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000817", + "multivalued": false, + "range": "ext_wall_orient_enum" + }, + "ext_window_orient": { + "name": "ext_window_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The compass direction the exterior window of the room is facing", + "title": "orientations of exterior window", + "examples": [ + { + "value": "southwest" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "orientations of exterior window" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000818", + "multivalued": false, + "range": "ext_window_orient_enum" + }, + "extreme_event": { + "name": "extreme_event", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Unusual physical events that may have affected microbial populations", + "title": "history/extreme events", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/extreme events" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000320", + "multivalued": false, + "range": "string" + }, + "fao_class": { + "name": "fao_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups", + "title": "soil_taxonomic/FAO classification", + "examples": [ + { + "value": "Luvisols" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil_taxonomic/FAO classification" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001083", + "multivalued": false, + "range": "fao_class_enum" + }, + "fertilizer_regm": { + "name": "fertilizer_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fertilizer name;fertilizer amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens", + "title": "fertilizer regimen", + "examples": [ + { + "value": "urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "fertilizer regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000556", + "multivalued": false, + "range": "string" + }, + "field": { + "name": "field", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the hydrocarbon field (e.g. Albacora)", + "title": "field name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "field name" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000291", + "multivalued": false, + "range": "string" + }, + "filter_method": { + "name": "filter_method", + "description": "Type of filter used or how the sample was filtered", + "title": "filter method", + "comments": [ + "describe the filter or provide a catalog number and manufacturer" + ], + "examples": [ + { + "value": "C18" + }, + { + "value": "Basix PES, 13-100-106 FisherSci" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:filter_type" + ], + "rank": 6, + "string_serialization": "{text}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "filter_type": { + "name": "filter_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "A device which removes solid particulates or airborne molecular contaminants", + "title": "filter type", + "examples": [ + { + "value": "HEPA" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "filter type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000765", + "multivalued": true, + "range": "filter_type_enum" + }, + "fire": { + "name": "fire", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Historical and/or physical evidence of fire", + "title": "history/fire", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/fire" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001086", + "multivalued": false, + "range": "string" + }, + "fireplace_type": { + "name": "fireplace_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A firebox with chimney", + "title": "fireplace type", + "examples": [ + { + "value": "wood burning" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "fireplace type" + ], + "is_a": "core field", + "string_serialization": "[gas burning|wood burning]", + "slot_uri": "MIXS:0000802", + "multivalued": false, + "range": "string" + }, + "flooding": { + "name": "flooding", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Historical and/or physical evidence of flooding", + "title": "history/flooding", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/flooding" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000319", + "multivalued": false, + "range": "string" + }, + "floor_age": { + "name": "floor_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "years, weeks, days" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The time period since installment of the carpet or flooring", + "title": "floor age", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor age" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000164", + "multivalued": false, + "range": "string" + }, + "floor_area": { + "name": "floor_area", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The area of the floor space within the room", + "title": "floor area", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor area" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000165", + "multivalued": false, + "range": "string" + }, + "floor_cond": { + "name": "floor_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas", + "title": "floor condition", + "examples": [ + { + "value": "new" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000803", + "multivalued": false, + "range": "floor_cond_enum" + }, + "floor_count": { + "name": "floor_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of floors in the building, including basements and mechanical penthouse", + "title": "floor count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000225", + "multivalued": false, + "range": "string" + }, + "floor_finish_mat": { + "name": "floor_finish_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The floor covering type; the finished surface that is walked on", + "title": "floor finish material", + "examples": [ + { + "value": "carpet" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor finish material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000804", + "multivalued": false, + "range": "floor_finish_mat_enum" + }, + "floor_struc": { + "name": "floor_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the structural elements and subfloor upon which the finish flooring is installed", + "title": "floor structure", + "examples": [ + { + "value": "concrete" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor structure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000806", + "multivalued": false, + "range": "floor_struc_enum" + }, + "floor_thermal_mass": { + "name": "floor_thermal_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "joule per degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The ability of the floor to provide inertia against temperature fluctuations", + "title": "floor thermal mass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor thermal mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000166", + "multivalued": false, + "range": "string" + }, + "floor_water_mold": { + "name": "floor_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew in a room", + "title": "floor signs of water/mold", + "examples": [ + { + "value": "ceiling discoloration" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "floor signs of water/mold" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000805", + "multivalued": false, + "range": "floor_water_mold_enum" + }, + "fluor": { + "name": "fluor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram chlorophyll a per cubic meter, volts" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Raw or converted fluorescence of water", + "title": "fluorescence", + "examples": [ + { + "value": "2.5 volts" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "fluorescence" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000704", + "multivalued": false, + "range": "string" + }, + "freq_clean": { + "name": "freq_clean", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration or {text}" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of times the sample location is cleaned. Frequency of cleaning might be on a Daily basis, Weekly, Monthly, Quarterly or Annually.", + "title": "frequency of cleaning", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "frequency of cleaning" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000226", + "multivalued": false, + "range": "string" + }, + "freq_cook": { + "name": "freq_cook", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of times a meal is cooked per week", + "title": "frequency of cooking", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "frequency of cooking" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000227", + "multivalued": false, + "range": "string" + }, + "fungicide_regm": { + "name": "fungicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fungicide name;fungicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens", + "title": "fungicide regimen", + "examples": [ + { + "value": "bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "fungicide regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000557", + "multivalued": false, + "range": "string" + }, + "furniture": { + "name": "furniture", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The types of furniture present in the sampled room", + "title": "furniture", + "examples": [ + { + "value": "chair" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "furniture" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000807", + "multivalued": false, + "range": "furniture_enum" + }, + "gaseous_environment": { + "name": "gaseous_environment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gaseous compound name;gaseous compound amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens", + "title": "gaseous environment", + "examples": [ + { + "value": "nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "gaseous environment" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000558", + "multivalued": false, + "range": "string" + }, + "gaseous_substances": { + "name": "gaseous_substances", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gaseous substance name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances", + "title": "gaseous substances", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "gaseous substances" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000661", + "multivalued": false, + "range": "string" + }, + "gender_restroom": { + "name": "gender_restroom", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The gender type of the restroom", + "title": "gender of restroom", + "examples": [ + { + "value": "male" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "gender of restroom" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000808", + "multivalued": false, + "range": "gender_restroom_enum" + }, + "genetic_mod": { + "name": "genetic_mod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection", + "title": "genetic modification", + "examples": [ + { + "value": "aox1A transgenic" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "genetic modification" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000859", + "multivalued": false, + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology (http://purl.bioontology.org/ontology/GAZ)", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "is_a": "environment field", + "string_serialization": "{term}: {term}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "range": "string" + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "glucosidase activity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000137", + "multivalued": false, + "range": "string" + }, + "gravidity": { + "name": "gravidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravidity status;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used", + "title": "gravidity", + "examples": [ + { + "value": "yes;due date:2018-05-11" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "gravidity" + ], + "is_a": "core field", + "string_serialization": "{boolean};{timestamp}", + "slot_uri": "MIXS:0000875", + "multivalued": false, + "range": "string" + }, + "gravity": { + "name": "gravity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravity factor value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per square second, g" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments", + "title": "gravity", + "examples": [ + { + "value": "12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "gravity" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000559", + "multivalued": false, + "range": "string" + }, + "growth_facil": { + "name": "growth_facil", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text or CO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of facility where the sampled plant was grown; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field. Alternatively use Crop Ontology (CO) terms, see http://www.cropontology.org/ontology/CO_715/Crop%20Research", + "title": "growth facility", + "examples": [ + { + "value": "Growth chamber [CO_715:0000189]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "growth facility" + ], + "is_a": "core field", + "string_serialization": "{text}|{termLabel} {[termID]}", + "slot_uri": "MIXS:0001043", + "multivalued": false, + "range": "string" + }, + "growth_habit": { + "name": "growth_habit", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Characteristic shape, appearance or growth form of a plant species", + "title": "growth habit", + "examples": [ + { + "value": "spreading" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "growth habit" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001044", + "multivalued": false, + "range": "growth_habit_enum" + }, + "growth_hormone_regm": { + "name": "growth_hormone_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "growth hormone name;growth hormone amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens", + "title": "growth hormone regimen", + "examples": [ + { + "value": "abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "growth hormone regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000560", + "multivalued": false, + "range": "string" + }, + "hall_count": { + "name": "hall_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total count of hallways and cooridors in the built structure", + "title": "hallway/corridor count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hallway/corridor count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000228", + "multivalued": false, + "range": "string" + }, + "handidness": { + "name": "handidness", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The handidness of the individual sampled", + "title": "handidness", + "examples": [ + { + "value": "right handedness" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "handidness" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000809", + "multivalued": false, + "range": "handidness_enum" + }, + "hc_produced": { + "name": "hc_produced", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon type produced", + "examples": [ + { + "value": "Gas" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hydrocarbon type produced" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000989", + "multivalued": false, + "range": "hc_produced_enum" + }, + "hcr": { + "name": "hcr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource type", + "examples": [ + { + "value": "Oil Sand" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hydrocarbon resource type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000988", + "multivalued": false, + "range": "hcr_enum" + }, + "hcr_fw_salinity": { + "name": "hcr_fw_salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS", + "title": "formation water salinity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "formation water salinity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000406", + "multivalued": false, + "range": "string" + }, + "hcr_geol_age": { + "name": "hcr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hydrocarbon resource geological age" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000993", + "multivalued": false, + "range": "hcr_geol_age_enum" + }, + "hcr_pressure": { + "name": "hcr_pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere, kilopascal" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original pressure of the hydrocarbon resource", + "title": "hydrocarbon resource original pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hydrocarbon resource original pressure" + ], + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000395", + "multivalued": false, + "range": "string" + }, + "hcr_temp": { + "name": "hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original temperature of the hydrocarbon resource", + "title": "hydrocarbon resource original temperature", + "examples": [ + { + "value": "150-295 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "hydrocarbon resource original temperature" + ], + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000393", + "multivalued": false, + "range": "string" + }, + "heat_cool_type": { + "name": "heat_cool_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Methods of conditioning or heating a room or building", + "title": "heating and cooling system type", + "examples": [ + { + "value": "heat pump" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "heating and cooling system type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000766", + "multivalued": true, + "range": "heat_cool_type_enum" + }, + "heat_deliv_loc": { + "name": "heat_deliv_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The location of heat delivery within the room", + "title": "heating delivery locations", + "examples": [ + { + "value": "north" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "heating delivery locations" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000810", + "multivalued": false, + "range": "heat_deliv_loc_enum" + }, + "heat_sys_deliv_meth": { + "name": "heat_sys_deliv_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The method by which the heat is delivered through the system", + "title": "heating system delivery method", + "examples": [ + { + "value": "radiant" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "heating system delivery method" + ], + "is_a": "core field", + "string_serialization": "[conductive|radiant]", + "slot_uri": "MIXS:0000812", + "multivalued": false, + "range": "string" + }, + "heat_system_id": { + "name": "heat_system_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "unique identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The heating system identifier", + "title": "heating system identifier", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "heating system identifier" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000833", + "multivalued": false, + "range": "string" + }, + "heavy_metals": { + "name": "heavy_metals", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "heavy metal name;measurement value unit" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Heavy metals present in the sequenced sample and their concentrations. For multiple heavy metals and concentrations, add multiple copies of this field.", + "title": "extreme_unusual_properties/heavy metals", + "examples": [ + { + "value": "mercury;0.09 micrograms per gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "extreme_unusual_properties/heavy metals" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000652", + "multivalued": false, + "range": "string" + }, + "heavy_metals_meth": { + "name": "heavy_metals_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining heavy metals", + "title": "extreme_unusual_properties/heavy metals method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "extreme_unusual_properties/heavy metals method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000343", + "multivalued": false, + "range": "string" + }, + "height_carper_fiber": { + "name": "height_carper_fiber", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average carpet fiber height in the indoor environment", + "title": "height carpet fiber mat", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "height carpet fiber mat" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000167", + "multivalued": false, + "range": "string" + }, + "herbicide_regm": { + "name": "herbicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "herbicide name;herbicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "herbicide regimen", + "examples": [ + { + "value": "atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "herbicide regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000561", + "multivalued": false, + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "soil horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil horizon method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "range": "string" + }, + "host_age": { + "name": "host_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year, day, hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees", + "title": "host age", + "examples": [ + { + "value": "10 days" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host age" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000255", + "multivalued": false, + "range": "string" + }, + "host_body_habitat": { + "name": "host_body_habitat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original body habitat where the sample was obtained from", + "title": "host body habitat", + "examples": [ + { + "value": "nasopharynx" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host body habitat" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000866", + "multivalued": false, + "range": "string" + }, + "host_body_product": { + "name": "host_body_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon", + "title": "host body product", + "examples": [ + { + "value": "Portion of mucus [fma66938]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host body product" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000888", + "multivalued": false, + "range": "string" + }, + "host_body_site": { + "name": "host_body_site", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON", + "title": "host body site", + "examples": [ + { + "value": "gill [UBERON:0002535]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host body site" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000867", + "multivalued": false, + "range": "string" + }, + "host_body_temp": { + "name": "host_body_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Core body temperature of the host when sample was collected", + "title": "host body temperature", + "examples": [ + { + "value": "15 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host body temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000274", + "multivalued": false, + "range": "string" + }, + "host_color": { + "name": "host_color", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "color" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The color of host", + "title": "host color", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host color" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000260", + "multivalued": false, + "range": "string" + }, + "host_common_name": { + "name": "host_common_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Common name of the host.", + "title": "host common name", + "examples": [ + { + "value": "human" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host common name" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000248", + "multivalued": false, + "range": "string" + }, + "host_diet": { + "name": "host_diet", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diet type" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types", + "title": "host diet", + "examples": [ + { + "value": "herbivore" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host diet" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000869", + "multivalued": false, + "range": "string" + }, + "host_dry_mass": { + "name": "host_dry_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of dry mass", + "title": "host dry mass", + "examples": [ + { + "value": "500 gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host dry mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000257", + "multivalued": false, + "range": "string" + }, + "host_family_relation": { + "name": "host_family_relation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "relationship type;arbitrary identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Familial relationships to other hosts in the same study; can include multiple relationships", + "title": "host family relationship", + "examples": [ + { + "value": "offspring;Mussel25" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host family relationship" + ], + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0000872", + "multivalued": false, + "range": "string" + }, + "host_genotype": { + "name": "host_genotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "genotype" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Observed genotype", + "title": "host genotype", + "examples": [ + { + "value": "C57BL/6" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host genotype" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000365", + "multivalued": false, + "range": "string" + }, + "host_growth_cond": { + "name": "host_growth_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Literature reference giving growth conditions of the host", + "title": "host growth conditions", + "examples": [ + { + "value": "https://academic.oup.com/icesjms/article/68/2/349/617247" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host growth conditions" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000871", + "multivalued": false, + "range": "string" + }, + "host_height": { + "name": "host_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The height of subject", + "title": "host height", + "examples": [ + { + "value": "0.1 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host height" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000264", + "multivalued": false, + "range": "string" + }, + "host_last_meal": { + "name": "host_last_meal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "content;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Content of last meal and time since feeding; can include multiple values", + "title": "host last meal", + "examples": [ + { + "value": "corn feed;P2H" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host last meal" + ], + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000870", + "multivalued": false, + "range": "string" + }, + "host_length": { + "name": "host_length", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length of subject", + "title": "host length", + "examples": [ + { + "value": "1 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host length" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000256", + "multivalued": false, + "range": "string" + }, + "host_life_stage": { + "name": "host_life_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "stage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of life stage of host", + "title": "host life stage", + "examples": [ + { + "value": "adult" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host life stage" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000251", + "multivalued": false, + "range": "string" + }, + "host_phenotype": { + "name": "host_phenotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PATO or HP" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP", + "title": "host phenotype", + "examples": [ + { + "value": "elongated [PATO:0001154]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host phenotype" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000874", + "multivalued": false, + "range": "string" + }, + "host_sex": { + "name": "host_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Gender or physical sex of the host.", + "title": "host sex", + "examples": [ + { + "value": "non-binary" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host sex" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000811", + "multivalued": false, + "range": "host_sex_enum" + }, + "host_shape": { + "name": "host_shape", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "shape" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Morphological shape of host", + "title": "host shape", + "examples": [ + { + "value": "round" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host shape" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000261", + "multivalued": false, + "range": "string" + }, + "host_subject_id": { + "name": "host_subject_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "unique identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier by which each subject can be referred to, de-identified.", + "title": "host subject id", + "examples": [ + { + "value": "MPI123" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host subject id" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000861", + "multivalued": false, + "range": "string" + }, + "host_subspecf_genlin": { + "name": "host_subspecf_genlin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.", + "title": "host subspecific genetic lineage", + "examples": [ + { + "value": "serovar:Newport, variety:glabrum, cultivar: Red Delicious" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host subspecific genetic lineage" + ], + "is_a": "core field", + "string_serialization": "{rank name}:{text}", + "slot_uri": "MIXS:0001318", + "multivalued": false, + "range": "string" + }, + "host_substrate": { + "name": "host_substrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "substrate name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The growth substrate of the host.", + "title": "host substrate", + "examples": [ + { + "value": "rock" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host substrate" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000252", + "multivalued": false, + "range": "string" + }, + "host_symbiont": { + "name": "host_symbiont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "species name or common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.", + "title": "observed host symbionts", + "examples": [ + { + "value": "flukeworms" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "observed host symbionts" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001298", + "multivalued": false, + "range": "string" + }, + "host_taxid": { + "name": "host_taxid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCBI taxon identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "NCBI taxon id of the host, e.g. 9606", + "title": "host taxid", + "comments": [ + "Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host taxid" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000250", + "multivalued": false, + "range": "string" + }, + "host_tot_mass": { + "name": "host_tot_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total mass of the host at collection, the unit depends on host", + "title": "host total mass", + "examples": [ + { + "value": "2500 gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host total mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000263", + "multivalued": false, + "range": "string" + }, + "host_wet_mass": { + "name": "host_wet_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of wet mass", + "title": "host wet mass", + "examples": [ + { + "value": "1500 gram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "host wet mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000567", + "multivalued": false, + "range": "string" + }, + "humidity": { + "name": "humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Amount of water vapour in the air, at the time of sampling", + "title": "humidity", + "examples": [ + { + "value": "25 gram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000100", + "multivalued": false, + "range": "string" + }, + "humidity_regm": { + "name": "humidity_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "humidity value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "humidity regimen", + "examples": [ + { + "value": "25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "humidity regimen" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000568", + "multivalued": false, + "range": "string" + }, + "indoor_space": { + "name": "indoor_space", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A distinguishable space within a structure, the purpose for which discrete areas of a building is used", + "title": "indoor space", + "examples": [ + { + "value": "foyer" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "indoor space" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000763", + "multivalued": false, + "range": "indoor_space_enum" + }, + "indoor_surf": { + "name": "indoor_surf", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of indoor surface", + "title": "indoor surface", + "examples": [ + { + "value": "wall" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "indoor surface" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000764", + "multivalued": false, + "range": "indoor_surf_enum" + }, + "indust_eff_percent": { + "name": "indust_eff_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of industrial effluents received by wastewater treatment plant", + "title": "industrial effluent percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "industrial effluent percent" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000662", + "multivalued": false, + "range": "string" + }, + "inorg_particles": { + "name": "inorg_particles", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "inorganic particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles", + "title": "inorganic particles", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "inorganic particles" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000664", + "multivalued": false, + "range": "string" + }, + "inside_lux": { + "name": "inside_lux", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilowatt per square metre" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The recorded value at sampling time (power density)", + "title": "inside lux light", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "inside lux light" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000168", + "multivalued": false, + "range": "string" + }, + "int_wall_cond": { + "name": "int_wall_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the wall at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas", + "title": "interior wall condition", + "examples": [ + { + "value": "damaged" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "interior wall condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000813", + "multivalued": false, + "range": "int_wall_cond_enum" + }, + "isotope_exposure": { + "name": "isotope_exposure", + "description": "List isotope exposure or addition applied to your sample.", + "title": "isotope exposure/addition", + "todos": [ + "Can we make the H218O correctly super and subscripted?" + ], + "comments": [ + "This is required when your experimental design includes the use of isotopically labeled compounds" + ], + "examples": [ + { + "value": "13C glucose" + }, + { + "value": "H218O" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:chem_administration" + ], + "rank": 16, + "string_serialization": "{termLabel} {[termID]}; {timestamp}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "iw_bt_date_well": { + "name": "iw_bt_date_well", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Injection water breakthrough date per well following a secondary and/or tertiary recovery", + "title": "injection water breakthrough date of specific well", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "injection water breakthrough date of specific well" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001010", + "multivalued": false, + "range": "string" + }, + "iwf": { + "name": "iwf", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%)", + "title": "injection water fraction", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "injection water fraction" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000455", + "multivalued": false, + "range": "string" + }, + "last_clean": { + "name": "last_clean", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The last time the floor was cleaned (swept, mopped, vacuumed)", + "title": "last time swept/mopped/vacuumed", + "examples": [ + { + "value": "2018-05-11:T14:30Z" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "last time swept/mopped/vacuumed" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000814", + "multivalued": false, + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "decimal degrees, limit to 8 decimal points" + } + }, + "description": "The geographical origin of the sample as defined by latitude and longitude. The values should be reported in decimal degrees and in WGS84 system", + "title": "geographic location (latitude and longitude)", + "examples": [ + { + "value": "50.586825 6.408977" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "geographic location (latitude and longitude)" + ], + "is_a": "environment field", + "string_serialization": "{float} {float}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "range": "string" + }, + "lbc_thirty": { + "name": "lbc_thirty", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ppm CaCO3/pH" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "lime buffer capacity, determined after 30 minute incubation", + "title": "lime buffer capacity (at 30 minutes)", + "comments": [ + "This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit" + ], + "examples": [ + { + "value": "543 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0", + "https://secure.caes.uga.edu/extension/publications/files/pdf/C%20874_5.PDF" + ], + "aliases": [ + "lbc_thirty", + "lbc30", + "lime buffer capacity (at 30 minutes)" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "lbceq": { + "name": "lbceq", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ppm CaCO3/pH" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "lime buffer capacity, determined at equilibrium after 5 day incubation", + "title": "lime buffer capacity (after 5 day incubation)", + "comments": [ + "This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit" + ], + "examples": [ + { + "value": "1575 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "lbceq", + "lime buffer capacity (at 5-day equilibrium)" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "light_intensity": { + "name": "light_intensity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of light intensity", + "title": "light intensity", + "examples": [ + { + "value": "0.3 lux" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "light intensity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000706", + "multivalued": false, + "range": "string" + }, + "light_regm": { + "name": "light_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "exposure type;light intensity;light quality" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux; micrometer, nanometer, angstrom" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving exposure to light, including both light intensity and quality.", + "title": "light regimen", + "examples": [ + { + "value": "incandescant light;10 lux;450 nanometer" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "light regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000569", + "multivalued": false, + "range": "string" + }, + "light_type": { + "name": "light_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Application of light to achieve some practical or aesthetic effect. Lighting includes the use of both artificial light sources such as lamps and light fixtures, as well as natural illumination by capturing daylight. Can also include absence of light", + "title": "light type", + "examples": [ + { + "value": "desk lamp" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "light type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000769", + "multivalued": true, + "range": "light_type_enum" + }, + "link_class_info": { + "name": "link_class_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Link to digitized soil maps or other soil classification information", + "title": "link to classification information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "link to classification information" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000329", + "multivalued": false, + "range": "string" + }, + "link_climate_info": { + "name": "link_climate_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Link to climate resource", + "title": "link to climate information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "link to climate information" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000328", + "multivalued": false, + "range": "string" + }, + "lithology": { + "name": "lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "lithology", + "examples": [ + { + "value": "Volcanic" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "lithology" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000990", + "multivalued": false, + "range": "lithology_enum" + }, + "local_class": { + "name": "local_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "local classification name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Soil classification based on local soil classification system", + "title": "soil_taxonomic/local classification", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil_taxonomic/local classification" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000330", + "multivalued": false, + "range": "string" + }, + "local_class_meth": { + "name": "local_class_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the local soil classification", + "title": "soil_taxonomic/local classification method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil_taxonomic/local classification method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000331", + "multivalued": false, + "range": "string" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "magnesium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "range": "string" + }, + "manganese": { + "name": "manganese", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg (ppm)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of manganese in the sample", + "title": "manganese", + "examples": [ + { + "value": "24.7 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "manganese" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "max_occup": { + "name": "max_occup", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The maximum amount of people allowed in the indoor environment", + "title": "maximum occupancy", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "maximum occupancy" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000229", + "multivalued": false, + "range": "string" + }, + "mean_frict_vel": { + "name": "mean_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean friction velocity", + "title": "mean friction velocity", + "examples": [ + { + "value": "0.5 meter per second" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean friction velocity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000498", + "multivalued": false, + "range": "string" + }, + "mean_peak_frict_vel": { + "name": "mean_peak_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean peak friction velocity", + "title": "mean peak friction velocity", + "examples": [ + { + "value": "1 meter per second" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean peak friction velocity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000502", + "multivalued": false, + "range": "string" + }, + "mech_struc": { + "name": "mech_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "mechanical structure: a moving structure", + "title": "mechanical structure", + "examples": [ + { + "value": "elevator" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mechanical structure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000815", + "multivalued": false, + "range": "mech_struc_enum" + }, + "mechanical_damage": { + "name": "mechanical_damage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "damage type;body site" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about any mechanical damage exerted on the plant; can include multiple damages and sites", + "title": "mechanical damage", + "examples": [ + { + "value": "pruning;bark" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mechanical damage" + ], + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0001052", + "multivalued": false, + "range": "string" + }, + "methane": { + "name": "methane", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per billion, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Methane (gas) amount or concentration at the time of sampling", + "title": "methane", + "examples": [ + { + "value": "1800 parts per billion" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "methane" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000101", + "multivalued": false, + "range": "string" + }, + "micro_biomass_c_meth": { + "name": "micro_biomass_c_meth", + "description": "Reference or method used in determining microbial biomass carbon", + "title": "microbial biomass carbon method", + "todos": [ + "How should we separate values? | or ;? lets be consistent" + ], + "comments": [ + "required if \"microbial_biomass_c\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6" + }, + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:micro_biomass_meth" + ], + "rank": 11, + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "micro_biomass_meth": { + "name": "micro_biomass_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining microbial biomass", + "title": "microbial biomass method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "microbial biomass method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000339", + "multivalued": false, + "range": "string" + }, + "micro_biomass_n_meth": { + "name": "micro_biomass_n_meth", + "description": "Reference or method used in determining microbial biomass nitrogen", + "title": "microbial biomass nitrogen method", + "comments": [ + "required if \"microbial_biomass_n\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6" + }, + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:micro_biomass_meth" + ], + "rank": 13, + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_group": "MIxS Inspired" + }, + "microbial_biomass": { + "name": "microbial_biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram per kilogram soil" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. If you keep this, you would need to have correction factors used for conversion to the final units", + "title": "microbial biomass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "microbial biomass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000650", + "multivalued": false, + "range": "string" + }, + "microbial_biomass_c": { + "name": "microbial_biomass_c", + "description": "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.", + "title": "microbial biomass carbon", + "comments": [ + "If you provide this, correction factors used for conversion to the final units and method are required" + ], + "examples": [ + { + "value": "0.05 ug C/g dry soil" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 10, + "string_serialization": "{float} {unit}", + "slot_group": "MIxS Inspired" + }, + "microbial_biomass_n": { + "name": "microbial_biomass_n", + "description": "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.", + "title": "microbial biomass nitrogen", + "comments": [ + "If you provide this, correction factors used for conversion to the final units and method are required" + ], + "examples": [ + { + "value": "0.05 ug N/g dry soil" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 12, + "string_serialization": "{float} {unit}", + "slot_group": "MIxS Inspired" + }, + "mineral_nutr_regm": { + "name": "mineral_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mineral nutrient name;mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens", + "title": "mineral nutrient regimen", + "examples": [ + { + "value": "potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mineral nutrient regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000570", + "multivalued": false, + "range": "string" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "miscellaneous parameter" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "range": "string" + }, + "n_alkanes": { + "name": "n_alkanes", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "n-alkane name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of n-alkanes; can include multiple n-alkanes", + "title": "n-alkanes", + "examples": [ + { + "value": "n-hexadecane;100 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "n-alkanes" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000503", + "multivalued": false, + "range": "string" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "nitrate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "range": "string" + }, + "nitrate_nitrogen": { + "name": "nitrate_nitrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate nitrogen in the sample", + "title": "nitrate_nitrogen", + "comments": [ + "often below some specified limit of detection" + ], + "examples": [ + { + "value": "0.29 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "nitrate_nitrogen", + "NO3-N" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "nitrite" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "range": "string" + }, + "nitrite_nitrogen": { + "name": "nitrite_nitrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite nitrogen in the sample", + "title": "nitrite_nitrogen", + "examples": [ + { + "value": "1.2 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "nitrite_nitrogen", + "NO2-N" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "nitro": { + "name": "nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrogen (total)", + "title": "nitrogen", + "examples": [ + { + "value": "4.2 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000504", + "multivalued": false, + "range": "string" + }, + "non_microb_biomass": { + "name": "non_microb_biomass", + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ;", + "title": "non-microbial biomass", + "examples": [ + { + "value": "insect 0.23 ug; plant 1g" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:biomass|microbial_biomass" + ], + "rank": 8, + "string_serialization": "{text};{float} {unit}", + "slot_group": "MIxS Inspired" + }, + "non_microb_biomass_method": { + "name": "non_microb_biomass_method", + "description": "Reference or method used in determining biomass", + "title": "non-microbial biomass method", + "comments": [ + "required if \"non-microbial biomass\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1038/s41467-021-26181-3" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 9, + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_group": "MIxS Inspired" + }, + "non_min_nutr_regm": { + "name": "non_min_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens", + "title": "non-mineral nutrient regimen", + "examples": [ + { + "value": "carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "non-mineral nutrient regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000571", + "multivalued": false, + "range": "string" + }, + "number_pets": { + "name": "number_pets", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of pets residing in the sampled space", + "title": "number of pets", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "number of pets" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000231", + "multivalued": false, + "range": "string" + }, + "number_plants": { + "name": "number_plants", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of plant(s) in the sampling space", + "title": "number of houseplants", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "number of houseplants" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000230", + "multivalued": false, + "range": "string" + }, + "number_resident": { + "name": "number_resident", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of individuals currently occupying in the sampling location", + "title": "number of residents", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "number of residents" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000232", + "multivalued": false, + "range": "string" + }, + "occup_density_samp": { + "name": "occup_density_samp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Average number of occupants at time of sampling per square footage", + "title": "occupant density at sampling", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "occupant density at sampling" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000217", + "multivalued": false, + "range": "string" + }, + "occup_document": { + "name": "occup_document", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of documentation of occupancy", + "title": "occupancy documentation", + "examples": [ + { + "value": "estimate" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "occupancy documentation" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000816", + "multivalued": false, + "range": "occup_document_enum" + }, + "occup_samp": { + "name": "occup_samp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Number of occupants present at time of sample within the given space", + "title": "occupancy at sampling", + "examples": [ + { + "value": "10" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "occupancy at sampling" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000772", + "multivalued": false, + "range": "string" + }, + "org_carb": { + "name": "org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic carbon", + "title": "organic carbon", + "examples": [ + { + "value": "1.5 microgram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organic carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000508", + "multivalued": false, + "range": "string" + }, + "org_count_qpcr_info": { + "name": "org_count_qpcr_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per gram (or ml or cm^2)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)", + "title": "organism count qPCR information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organism count qPCR information" + ], + "is_a": "core field", + "string_serialization": "{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles", + "slot_uri": "MIXS:0000099", + "multivalued": false, + "range": "string" + }, + "org_matter": { + "name": "org_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organic matter" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "range": "string" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organic nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "range": "string" + }, + "org_nitro_method": { + "name": "org_nitro_method", + "description": "Method used for obtaining organic nitrogen", + "title": "organic nitrogen method", + "comments": [ + "required if \"org_nitro\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(85)90144-0" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:org_nitro|tot_nitro_cont_meth" + ], + "rank": 14, + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_group": "MIxS Inspired" + }, + "org_particles": { + "name": "org_particles", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc.", + "title": "organic particles", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organic particles" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000665", + "multivalued": false, + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "organism count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "range": "string" + }, + "other_treatment": { + "name": "other_treatment", + "description": "Other treatments applied to your samples that are not applicable to the provided fields", + "title": "other treatments", + "comments": [ + "This is an open text field to provide any treatments that cannot be captured in the provided slots." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:additional_info" + ], + "rank": 15, + "string_serialization": "{text}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "owc_tvdss": { + "name": "owc_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the original oil water contact (OWC) zone (average) (m TVDSS)", + "title": "oil water contact depth", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "oil water contact depth" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000405", + "multivalued": false, + "range": "string" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "examples": [ + { + "value": "aerobic" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "oxygenation status of sample" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "range": "OxyStatSampEnum" + }, + "oxygen": { + "name": "oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oxygen (gas) amount or concentration at the time of sampling", + "title": "oxygen", + "examples": [ + { + "value": "600 parts per million" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "oxygen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000104", + "multivalued": false, + "range": "string" + }, + "part_org_carb": { + "name": "part_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of particulate organic carbon", + "title": "particulate organic carbon", + "examples": [ + { + "value": "1.92 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "particulate organic carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000515", + "multivalued": false, + "range": "string" + }, + "part_org_nitro": { + "name": "part_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of particulate organic nitrogen", + "title": "particulate organic nitrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "particulate organic nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000719", + "multivalued": false, + "range": "string" + }, + "particle_class": { + "name": "particle_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values", + "title": "particle classification", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "particle classification" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000206", + "multivalued": false, + "range": "string" + }, + "permeability": { + "name": "permeability", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mD" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))", + "title": "permeability", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "permeability" + ], + "is_a": "core field", + "string_serialization": "{integer} - {integer} {unit}", + "slot_uri": "MIXS:0000404", + "multivalued": false, + "range": "string" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "perturbation" + ], + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "range": "string" + }, + "pesticide_regm": { + "name": "pesticide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pesticide name;pesticide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens", + "title": "pesticide regimen", + "examples": [ + { + "value": "pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pesticide regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000573", + "multivalued": false, + "range": "string" + }, + "petroleum_hydrocarb": { + "name": "petroleum_hydrocarb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of petroleum hydrocarbon", + "title": "petroleum hydrocarbon", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "petroleum hydrocarbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000516", + "multivalued": false, + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pH" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "range": "double" + }, + "ph_meth": { + "name": "ph_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining ph", + "title": "pH method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pH method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "range": "string" + }, + "ph_regm": { + "name": "ph_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen", + "title": "pH regimen", + "examples": [ + { + "value": "7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pH regimen" + ], + "is_a": "core field", + "string_serialization": "{float};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001056", + "multivalued": false, + "range": "string" + }, + "phaeopigments": { + "name": "phaeopigments", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phaeopigment name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phaeopigments; can include multiple phaeopigments", + "title": "phaeopigments", + "examples": [ + { + "value": "2.5 milligram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "phaeopigments" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000180", + "multivalued": false, + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "phosphate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "range": "string" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "phospholipid fatty acid" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "range": "string" + }, + "photon_flux": { + "name": "photon_flux", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of photons per second per unit area" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of photon flux", + "title": "photon flux", + "examples": [ + { + "value": "3.926 micromole photons per second per square meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "photon flux" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000725", + "multivalued": false, + "range": "string" + }, + "plant_growth_med": { + "name": "plant_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "EO or enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary", + "title": "plant growth medium", + "examples": [ + { + "value": "hydroponic plant culture media [EO:0007067]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "plant growth medium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001057", + "multivalued": false, + "range": "string" + }, + "plant_product": { + "name": "plant_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "product name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the plant, where the sample was obtained from", + "title": "plant product", + "examples": [ + { + "value": "xylem sap [PO:0025539]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "plant product" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001058", + "multivalued": false, + "range": "string" + }, + "plant_sex": { + "name": "plant_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite.", + "title": "plant sex", + "examples": [ + { + "value": "Hermaphroditic" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "plant sex" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001059", + "multivalued": false, + "range": "plant_sex_enum" + }, + "plant_struc": { + "name": "plant_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here.", + "title": "plant structure", + "examples": [ + { + "value": "epidermis [PO:0005679]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "plant structure" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0001060", + "multivalued": false, + "range": "string" + }, + "pollutants": { + "name": "pollutants", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pollutant name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter, microgram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant", + "title": "pollutants", + "examples": [ + { + "value": "lead;0.15 microgram per cubic meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pollutants" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000107", + "multivalued": false, + "range": "string" + }, + "porosity": { + "name": "porosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Porosity of deposited sediment is volume of voids divided by the total volume of sample", + "title": "porosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "porosity" + ], + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000211", + "multivalued": false, + "range": "string" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "potassium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "range": "string" + }, + "pour_point": { + "name": "pour_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)", + "title": "pour point", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pour point" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000127", + "multivalued": false, + "range": "string" + }, + "pre_treatment": { + "name": "pre_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pre-treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process of pre-treatment removes materials that can be easily collected from the raw wastewater", + "title": "pre-treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pre-treatment" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000348", + "multivalued": false, + "range": "string" + }, + "pres_animal_insect": { + "name": "pres_animal_insect", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration;count" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type and number of animals or insects present in the sampling space.", + "title": "presence of pets, animals, or insects", + "examples": [ + { + "value": "cat;5" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "presence of pets, animals, or insects" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000819", + "multivalued": false, + "range": "string", + "pattern": "^(cat|dog|rodent|snake|other);\\d+$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "pressure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "range": "string" + }, + "prev_land_use_meth": { + "name": "prev_land_use_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining previous land use and dates", + "title": "history/previous land use method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/previous land use method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000316", + "multivalued": false, + "range": "string" + }, + "previous_land_use": { + "name": "previous_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "land use name;date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Previous land use and dates", + "title": "history/previous land use", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/previous land use" + ], + "is_a": "core field", + "string_serialization": "{text};{timestamp}", + "slot_uri": "MIXS:0000315", + "multivalued": false, + "range": "string" + }, + "primary_prod": { + "name": "primary_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter per day, gram per square meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of primary production, generally measured as isotope uptake", + "title": "primary production", + "examples": [ + { + "value": "100 milligram per cubic meter per day" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "primary production" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000728", + "multivalued": false, + "range": "string" + }, + "primary_treatment": { + "name": "primary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "primary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed", + "title": "primary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "primary treatment" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000349", + "multivalued": false, + "range": "string" + }, + "prod_rate": { + "name": "prod_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oil and/or gas production rates per well (e.g. 524 m3 / day)", + "title": "production rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "production rate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000452", + "multivalued": false, + "range": "string" + }, + "prod_start_date": { + "name": "prod_start_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Date of field's first production", + "title": "production start date", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "production start date" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001008", + "multivalued": false, + "range": "string" + }, + "profile_position": { + "name": "profile_position", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas", + "title": "profile position", + "examples": [ + { + "value": "summit" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "profile position" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001084", + "multivalued": false, + "range": "profile_position_enum" + }, + "project_id": { + "name": "project_id", + "description": "Proposal IDs or names associated with dataset", + "title": "project ID", + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 1, + "string_serialization": "{text}", + "slot_group": "EMSL", + "recommended": true + }, + "proposal_dna": { + "name": "proposal_dna", + "title": "DNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 19, + "string_serialization": "{text}", + "slot_group": "JGI-Metagenomics", + "recommended": true + }, + "proposal_rna": { + "name": "proposal_rna", + "title": "RNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 19, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "quad_pos": { + "name": "quad_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The quadrant position of the sampling room within the building", + "title": "quadrant position", + "examples": [ + { + "value": "West side" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "quadrant position" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000820", + "multivalued": false, + "range": "quad_pos_enum" + }, + "radiation_regm": { + "name": "radiation_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "radiation type name;radiation amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "rad, gray" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens", + "title": "radiation regimen", + "examples": [ + { + "value": "gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "radiation regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000575", + "multivalued": false, + "range": "string" + }, + "rainfall_regm": { + "name": "rainfall_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "rainfall regimen", + "examples": [ + { + "value": "15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rainfall regimen" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000576", + "multivalued": false, + "range": "string" + }, + "reactor_type": { + "name": "reactor_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "reactor type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage", + "title": "reactor type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "reactor type" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000350", + "multivalued": false, + "range": "string" + }, + "redox_potential": { + "name": "redox_potential", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millivolt" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential", + "title": "redox potential", + "examples": [ + { + "value": "300 millivolt" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "redox potential" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000182", + "multivalued": false, + "range": "string" + }, + "rel_air_humidity": { + "name": "rel_air_humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Partial vapor and air pressure, density of the vapor and air, or by the actual mass of the vapor and air", + "title": "relative air humidity", + "examples": [ + { + "value": "80%" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "relative air humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000121", + "multivalued": false, + "range": "string" + }, + "rel_humidity_out": { + "name": "rel_humidity_out", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram of air, kilogram of air" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The recorded outside relative humidity value at the time of sampling", + "title": "outside relative humidity", + "examples": [ + { + "value": "12 per kilogram of air" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "outside relative humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000188", + "multivalued": false, + "range": "string" + }, + "rel_samp_loc": { + "name": "rel_samp_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The sampling location within the train car", + "title": "relative sampling location", + "examples": [ + { + "value": "center of car" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "relative sampling location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000821", + "multivalued": false, + "range": "rel_samp_loc_enum" + }, + "replicate_number": { + "name": "replicate_number", + "description": "If sending biological replicates, indicate the rep number here.", + "title": "replicate number", + "comments": [ + "This will guide staff in ensuring your samples are block & randomized correctly" + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 6, + "string_serialization": "{integer}", + "slot_group": "EMSL", + "recommended": true + }, + "reservoir": { + "name": "reservoir", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the reservoir (e.g. Carapebus)", + "title": "reservoir name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "reservoir name" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000303", + "multivalued": false, + "range": "string" + }, + "resins_pc": { + "name": "resins_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "resins wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "resins wt%" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000134", + "multivalued": false, + "range": "string" + }, + "rna_absorb1": { + "name": "rna_absorb1", + "description": "260/280 measurement of RNA sample purity", + "title": "RNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 7, + "string_serialization": "{float}", + "slot_group": "JGI-Metatranscriptomics", + "range": "float", + "recommended": true + }, + "rna_absorb2": { + "name": "rna_absorb2", + "description": "260/230 measurement of RNA sample purity", + "title": "RNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 8, + "string_serialization": "{float}", + "slot_group": "JGI-Metatranscriptomics", + "range": "float", + "recommended": true + }, + "rna_concentration": { + "name": "rna_concentration", + "title": "RNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "string_serialization": "{float}", + "slot_group": "JGI-Metatranscriptomics", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 1000 + }, + "rna_cont_type": { + "name": "rna_cont_type", + "description": "Tube or plate (96-well)", + "title": "RNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 10, + "slot_group": "JGI-Metatranscriptomics", + "range": "JgiContTypeEnum", + "recommended": true + }, + "rna_cont_well": { + "name": "rna_cont_well", + "title": "RNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "rna_container_id": { + "name": "rna_container_id", + "title": "RNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_isolate_meth": { + "name": "rna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "RNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 16, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_project_contact": { + "name": "rna_project_contact", + "title": "RNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 18, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_samp_id": { + "name": "rna_samp_id", + "title": "RNA sample ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 3, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_sample_format": { + "name": "rna_sample_format", + "description": "Solution in which the RNA sample has been suspended", + "title": "RNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 12, + "slot_group": "JGI-Metatranscriptomics", + "range": "rna_sample_format_enum", + "recommended": true + }, + "rna_sample_name": { + "name": "rna_sample_name", + "description": "Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "RNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 4, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "rna_seq_project": { + "name": "rna_seq_project", + "title": "RNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 1, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_seq_project_name": { + "name": "rna_seq_project_name", + "title": "RNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metatranscriptomics" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 2, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_seq_project_pi": { + "name": "rna_seq_project_pi", + "title": "RNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 17, + "string_serialization": "{text}", + "slot_group": "JGI-Metatranscriptomics", + "recommended": true + }, + "rna_volume": { + "name": "rna_volume", + "title": "RNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 6, + "string_serialization": "{float}", + "slot_group": "JGI-Metatranscriptomics", + "range": "float", + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "room_air_exch_rate": { + "name": "room_air_exch_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The rate at which outside air replaces indoor air in a given space", + "title": "room air exchange rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room air exchange rate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000169", + "multivalued": false, + "range": "string" + }, + "room_architec_elem": { + "name": "room_architec_elem", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The unique details and component parts that, together, form the architecture of a distinguisahable space within a built structure", + "title": "room architectural elements", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room architectural elements" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000233", + "multivalued": false, + "range": "string" + }, + "room_condt": { + "name": "room_condt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The condition of the room at the time of sampling", + "title": "room condition", + "examples": [ + { + "value": "new" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000822", + "multivalued": false, + "range": "room_condt_enum" + }, + "room_connected": { + "name": "room_connected", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of rooms connected to the sampling room by a doorway", + "title": "rooms connected by a doorway", + "examples": [ + { + "value": "office" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooms connected by a doorway" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000826", + "multivalued": false, + "range": "room_connected_enum" + }, + "room_count": { + "name": "room_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total count of rooms in the built structure including all room types", + "title": "room count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000234", + "multivalued": false, + "range": "string" + }, + "room_dim": { + "name": "room_dim", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length, width and height of sampling room", + "title": "room dimensions", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room dimensions" + ], + "is_a": "core field", + "string_serialization": "{integer} {unit} x {integer} {unit} x {integer} {unit}", + "slot_uri": "MIXS:0000192", + "multivalued": false, + "range": "string" + }, + "room_door_dist": { + "name": "room_door_dist", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Distance between doors (meters) in the hallway between the sampling room and adjacent rooms", + "title": "room door distance", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room door distance" + ], + "is_a": "core field", + "string_serialization": "{integer} {unit}", + "slot_uri": "MIXS:0000193", + "multivalued": false, + "range": "string" + }, + "room_door_share": { + "name": "room_door_share", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of room(s) (room number, room name) sharing a door with the sampling room", + "title": "rooms that share a door with sampling room", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooms that share a door with sampling room" + ], + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000242", + "multivalued": false, + "range": "string" + }, + "room_hallway": { + "name": "room_hallway", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of room(s) (room number, room name) located in the same hallway as sampling room", + "title": "rooms that are on the same hallway", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooms that are on the same hallway" + ], + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000238", + "multivalued": false, + "range": "string" + }, + "room_loc": { + "name": "room_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The position of the room within the building", + "title": "room location in building", + "examples": [ + { + "value": "interior room" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room location in building" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000823", + "multivalued": false, + "range": "room_loc_enum" + }, + "room_moist_dam_hist": { + "name": "room_moist_dam_hist", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The history of moisture damage or mold in the past 12 months. Number of events of moisture damage or mold observed", + "title": "room moisture damage or mold history", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room moisture damage or mold history" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000235", + "multivalued": false, + "range": "integer" + }, + "room_net_area": { + "name": "room_net_area", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square feet, square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The net floor area of sampling room. Net area excludes wall thicknesses", + "title": "room net area", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room net area" + ], + "is_a": "core field", + "string_serialization": "{integer} {unit}", + "slot_uri": "MIXS:0000194", + "multivalued": false, + "range": "string" + }, + "room_occup": { + "name": "room_occup", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Count of room occupancy at time of sampling", + "title": "room occupancy", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room occupancy" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000236", + "multivalued": false, + "range": "string" + }, + "room_samp_pos": { + "name": "room_samp_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The horizontal sampling position in the room relative to architectural elements", + "title": "room sampling position", + "examples": [ + { + "value": "south corner" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room sampling position" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000824", + "multivalued": false, + "range": "room_samp_pos_enum" + }, + "room_type": { + "name": "room_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The main purpose or activity of the sampling room. A room is any distinguishable space within a structure", + "title": "room type", + "examples": [ + { + "value": "bathroom" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000825", + "multivalued": false, + "range": "room_type_enum" + }, + "room_vol": { + "name": "room_vol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic feet, cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Volume of sampling room", + "title": "room volume", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room volume" + ], + "is_a": "core field", + "string_serialization": "{integer} {unit}", + "slot_uri": "MIXS:0000195", + "multivalued": false, + "range": "string" + }, + "room_wall_share": { + "name": "room_wall_share", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of room(s) (room number, room name) sharing a wall with the sampling room", + "title": "rooms that share a wall with sampling room", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooms that share a wall with sampling room" + ], + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000243", + "multivalued": false, + "range": "string" + }, + "room_window_count": { + "name": "room_window_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Number of windows in the room", + "title": "room window count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "room window count" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000237", + "multivalued": false, + "range": "integer" + }, + "root_cond": { + "name": "root_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container.", + "title": "rooting conditions", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting conditions" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001061", + "multivalued": false, + "range": "string" + }, + "root_med_carbon": { + "name": "root_med_carbon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "carbon source name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source of organic carbon in the culture rooting medium; e.g. sucrose.", + "title": "rooting medium carbon", + "examples": [ + { + "value": "sucrose" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium carbon" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000577", + "multivalued": false, + "range": "string" + }, + "root_med_macronutr": { + "name": "root_med_macronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "macronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L).", + "title": "rooting medium macronutrients", + "examples": [ + { + "value": "KH2PO4;170¬†milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium macronutrients" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000578", + "multivalued": false, + "range": "string" + }, + "root_med_micronutr": { + "name": "root_med_micronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "micronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L).", + "title": "rooting medium micronutrients", + "examples": [ + { + "value": "H3BO3;6.2¬†milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium micronutrients" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000579", + "multivalued": false, + "range": "string" + }, + "root_med_ph": { + "name": "root_med_ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the culture rooting medium; e.g. 5.5.", + "title": "rooting medium pH", + "examples": [ + { + "value": "7.5" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium pH" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001062", + "multivalued": false, + "range": "string" + }, + "root_med_regl": { + "name": "root_med_regl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "regulator name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA.", + "title": "rooting medium regulators", + "examples": [ + { + "value": "abscisic acid;0.75 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium regulators" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000581", + "multivalued": false, + "range": "string" + }, + "root_med_solid": { + "name": "root_med_solid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the solidifying agent in the culture rooting medium; e.g. agar.", + "title": "rooting medium solidifier", + "examples": [ + { + "value": "agar" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium solidifier" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001063", + "multivalued": false, + "range": "string" + }, + "root_med_suppl": { + "name": "root_med_suppl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "supplement name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L).", + "title": "rooting medium organic supplements", + "examples": [ + { + "value": "nicotinic acid;0.5 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "rooting medium organic supplements" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000580", + "multivalued": false, + "range": "string" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "salinity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "range": "string" + }, + "salinity_meth": { + "name": "salinity_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining salinity", + "title": "salinity method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "salinity method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000341", + "multivalued": false, + "range": "string" + }, + "salt_regm": { + "name": "salt_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "salt name;salt amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens", + "title": "salt regimen", + "examples": [ + { + "value": "NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "salt regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000582", + "multivalued": false, + "range": "string" + }, + "samp_capt_status": { + "name": "samp_capt_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reason for the sample", + "title": "sample capture status", + "examples": [ + { + "value": "farm sample" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample capture status" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000860", + "multivalued": false, + "range": "samp_capt_status_enum" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample collection device" + ], + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "range": "string" + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample collection method" + ], + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "range": "string" + }, + "samp_collect_point": { + "name": "samp_collect_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample collection point", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample collection point" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001015", + "multivalued": false, + "range": "samp_collect_point_enum" + }, + "samp_dis_stage": { + "name": "samp_dis_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.", + "title": "sample disease stage", + "examples": [ + { + "value": "infection" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample disease stage" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000249", + "multivalued": false, + "range": "samp_dis_stage_enum" + }, + "samp_floor": { + "name": "samp_floor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The floor of the building, where the sampling room is located", + "title": "sampling floor", + "examples": [ + { + "value": "4th floor" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sampling floor" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000828", + "multivalued": false, + "range": "samp_floor_enum" + }, + "samp_loc_corr_rate": { + "name": "samp_loc_corr_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter per year" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays", + "title": "corrosion rate at sample location", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "corrosion rate at sample location" + ], + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000136", + "multivalued": false, + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater, storing samples in ethanol" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample material processing" + ], + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "range": "string" + }, + "samp_md": { + "name": "samp_md", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample measured depth", + "examples": [ + { + "value": "1534 meter;MSL" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample measured depth" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000413", + "multivalued": false, + "range": "string" + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample used for extracting nucleic acids, and subsequent sequencing. It can refer either to the original material collected or to any derived sub-samples. It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible. INSDC requires every sample name from a single Submitter to be unique. Use of a globally unique identifier for the field source_mat_id is recommended in addition to sample_name.", + "title": "sample name", + "examples": [ + { + "value": "ISDsoil1" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample name" + ], + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "range": "string" + }, + "samp_preserv": { + "name": "samp_preserv", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliliter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml)", + "title": "preservative added to sample", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "preservative added to sample" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000463", + "multivalued": false, + "range": "string" + }, + "samp_room_id": { + "name": "samp_room_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sampling room number. This ID should be consistent with the designations on the building floor plans", + "title": "sampling room ID or name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sampling room ID or name" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000244", + "multivalued": false, + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "examples": [ + { + "value": "5 liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "amount or size of sample collected" + ], + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "range": "string" + }, + "samp_sort_meth": { + "name": "samp_sort_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor.", + "title": "sample size sorting method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample size sorting method" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000216", + "multivalued": false, + "range": "string" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample storage duration" + ], + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample storage location" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which sample was stored, e.g. -80 degree Celsius", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample storage temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "range": "string" + }, + "samp_subtype": { + "name": "samp_subtype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample subtype", + "examples": [ + { + "value": "biofilm" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample subtype" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000999", + "multivalued": false, + "range": "samp_subtype_enum" + }, + "samp_time_out": { + "name": "samp_time_out", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "time" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The recent and long term history of outside sampling", + "title": "sampling time outside", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sampling time outside" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000196", + "multivalued": false, + "range": "string" + }, + "samp_transport_cond": { + "name": "samp_transport_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "days;degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)", + "title": "sample transport conditions", + "examples": [ + { + "value": "5 days;-20 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample transport conditions" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000410", + "multivalued": false, + "range": "string" + }, + "samp_tvdss": { + "name": "samp_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m", + "title": "sample true vertical depth subsea", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample true vertical depth subsea" + ], + "is_a": "core field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000409", + "multivalued": false, + "range": "string" + }, + "samp_type": { + "name": "samp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "GENEPIO:0001246" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).", + "title": "sample type", + "examples": [ + { + "value": "built environment sample [GENEPIO:0001248]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample type" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000998", + "multivalued": false, + "range": "string" + }, + "samp_weather": { + "name": "samp_weather", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The weather on the sampling day", + "title": "sampling day weather", + "examples": [ + { + "value": "foggy" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sampling day weather" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000827", + "multivalued": false, + "range": "samp_weather_enum" + }, + "samp_well_name": { + "name": "samp_well_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the well (e.g. BXA1123) where sample was taken", + "title": "sample well name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sample well name" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000296", + "multivalued": false, + "range": "string" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "slot_group": "Sample ID", + "range": "string", + "recommended": true + }, + "sample_shipped": { + "name": "sample_shipped", + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL.", + "title": "sample shipped amount", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "15 g" + }, + { + "value": "100 uL" + }, + { + "value": "5 mL" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 3, + "string_serialization": "{float} {unit}", + "slot_group": "EMSL", + "recommended": true + }, + "sample_type": { + "name": "sample_type", + "description": "Type of sample being submitted", + "title": "sample type", + "comments": [ + "This can vary from 'environmental package' if the sample is an extraction." + ], + "examples": [ + { + "value": "water extracted soil" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 2, + "slot_group": "EMSL", + "range": "sample_type_enum", + "recommended": true + }, + "saturates_pc": { + "name": "saturates_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "saturates wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "saturates wt%" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000131", + "multivalued": false, + "range": "string" + }, + "season": { + "name": "season", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCIT:C94729" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729).", + "title": "season", + "examples": [ + { + "value": "autumn [NCIT:C94733]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "season" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000829", + "multivalued": false, + "range": "string" + }, + "season_environment": { + "name": "season_environment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "seasonal environment name;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment", + "title": "seasonal environment", + "examples": [ + { + "value": "rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "seasonal environment" + ], + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001068", + "multivalued": false, + "range": "string" + }, + "season_precpt": { + "name": "season_precpt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "mean seasonal precipitation", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean seasonal precipitation" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000645", + "multivalued": false, + "range": "string" + }, + "season_temp": { + "name": "season_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean seasonal temperature", + "title": "mean seasonal temperature", + "examples": [ + { + "value": "18 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "mean seasonal temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000643", + "multivalued": false, + "range": "string" + }, + "season_use": { + "name": "season_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The seasons the space is occupied", + "title": "seasonal use", + "examples": [ + { + "value": "Winter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "seasonal use" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000830", + "multivalued": false, + "range": "season_use_enum" + }, + "secondary_treatment": { + "name": "secondary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "secondary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process for substantially degrading the biological content of the sewage", + "title": "secondary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "secondary treatment" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000351", + "multivalued": false, + "range": "string" + }, + "sediment_type": { + "name": "sediment_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about the sediment type based on major constituents", + "title": "sediment type", + "examples": [ + { + "value": "biogenous" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sediment type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001078", + "multivalued": false, + "range": "sediment_type_enum" + }, + "sewage_type": { + "name": "sewage_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "sewage type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of wastewater treatment plant as municipial or industrial", + "title": "sewage type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sewage type" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000215", + "multivalued": false, + "range": "string" + }, + "shad_dev_water_mold": { + "name": "shad_dev_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on the shading device", + "title": "shading device signs of water/mold", + "examples": [ + { + "value": "no presence of mold visible" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "shading device signs of water/mold" + ], + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000834", + "multivalued": false, + "range": "string" + }, + "shading_device_cond": { + "name": "shading_device_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the shading device at the time of sampling", + "title": "shading device condition", + "examples": [ + { + "value": "new" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "shading device condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000831", + "multivalued": false, + "range": "shading_device_cond_enum" + }, + "shading_device_loc": { + "name": "shading_device_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The location of the shading device in relation to the built structure", + "title": "shading device location", + "examples": [ + { + "value": "exterior" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "shading device location" + ], + "is_a": "core field", + "string_serialization": "[exterior|interior]", + "slot_uri": "MIXS:0000832", + "multivalued": false, + "range": "string" + }, + "shading_device_mat": { + "name": "shading_device_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "material name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The material the shading device is composed of", + "title": "shading device material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "shading device material" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000245", + "multivalued": false, + "range": "string" + }, + "shading_device_type": { + "name": "shading_device_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of shading device", + "title": "shading device type", + "examples": [ + { + "value": "slatted aluminum awning" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "shading device type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000835", + "multivalued": false, + "range": "shading_device_type_enum" + }, + "sieving": { + "name": "sieving", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "design name and/or size;amount" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Collection design of pooled samples and/or sieve size and amount of sample sieved", + "title": "composite design/sieving", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "composite design/sieving" + ], + "is_a": "core field", + "string_serialization": "{{text}|{float} {unit}};{float} {unit}", + "slot_uri": "MIXS:0000322", + "multivalued": false, + "range": "string" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "silicate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "range": "string" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "size fraction selected" + ], + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "range": "string" + }, + "size_frac_low": { + "name": "size_frac_low", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample", + "title": "size-fraction lower threshold", + "examples": [ + { + "value": "0.2 micrometer" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "size-fraction lower threshold" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000735", + "multivalued": false, + "range": "string" + }, + "size_frac_up": { + "name": "size_frac_up", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample", + "title": "size-fraction upper threshold", + "examples": [ + { + "value": "20 micrometer" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "size-fraction upper threshold" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000736", + "multivalued": false, + "range": "string" + }, + "slope_aspect": { + "name": "slope_aspect", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees); e.g., nw or 315 degrees. This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration.", + "title": "slope aspect", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "slope aspect" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000647", + "multivalued": false, + "range": "string" + }, + "slope_gradient": { + "name": "slope_gradient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer", + "title": "slope gradient", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "slope gradient" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000646", + "multivalued": false, + "range": "string" + }, + "sludge_retent_time": { + "name": "sludge_retent_time", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "hours" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The time activated sludge remains in reactor", + "title": "sludge retention time", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sludge retention time" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000669", + "multivalued": false, + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sodium" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "range": "string" + }, + "soil_horizon": { + "name": "soil_horizon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath", + "title": "soil horizon", + "examples": [ + { + "value": "A horizon" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil horizon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001082", + "multivalued": false, + "range": "soil_horizon_enum" + }, + "soil_text_measure": { + "name": "soil_text_measure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional.", + "title": "soil texture measurement", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil texture measurement" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000335", + "multivalued": false, + "range": "string" + }, + "soil_texture_meth": { + "name": "soil_texture_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil texture", + "title": "soil texture method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil texture method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000336", + "multivalued": false, + "range": "string" + }, + "soil_type": { + "name": "soil_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ENVO_00001998" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes.", + "title": "soil type", + "examples": [ + { + "value": "plinthosol [ENVO:00002250]" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil type" + ], + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000332", + "multivalued": false, + "range": "string" + }, + "soil_type_meth": { + "name": "soil_type_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil series name or other lower-level classification", + "title": "soil type method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soil type method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000334", + "multivalued": false, + "range": "string" + }, + "solar_irradiance": { + "name": "solar_irradiance", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilowatts per square meter per day, ergs per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of solar energy that arrives at a specific area of a surface during a specific time interval", + "title": "solar irradiance", + "examples": [ + { + "value": "1.36 kilowatts per square meter per day" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "solar irradiance" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000112", + "multivalued": false, + "range": "string" + }, + "soluble_inorg_mat": { + "name": "soluble_inorg_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "soluble inorganic material name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc.", + "title": "soluble inorganic material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soluble inorganic material" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000672", + "multivalued": false, + "range": "string" + }, + "soluble_org_mat": { + "name": "soluble_org_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "soluble organic material name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc.", + "title": "soluble organic material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soluble organic material" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000673", + "multivalued": false, + "range": "string" + }, + "soluble_react_phosp": { + "name": "soluble_react_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of soluble reactive phosphorus", + "title": "soluble reactive phosphorus", + "examples": [ + { + "value": "0.1 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "soluble reactive phosphorus" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000738", + "multivalued": false, + "range": "string" + }, + "source_mat_id": { + "name": "source_mat_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "for cultures of microorganisms: identifiers for two culture collections; for other material a unique arbitrary identifer" + } + }, + "description": "A unique identifier assigned to a material sample (as defined by http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular digital record of a material sample) used for extracting nucleic acids, and subsequent sequencing. The identifier can refer either to the original material collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher, /bio_material, or /culture_collection may or may not share the same value as the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id may both contain 'UAM:Herps:14' , referring to both the specimen voucher and sampled tissue with the same identifier. However, the /culture_collection qualifier may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id would refer to an identifier from some derived culture from which the nucleic acids were extracted (e.g. xatc123 or ark:/2154/R2).", + "title": "source material identifiers", + "examples": [ + { + "value": "MPI012345" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "source material identifiers" + ], + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "range": "string" + }, + "space_typ_state": { + "name": "space_typ_state", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Customary or normal state of the space", + "title": "space typical state", + "examples": [ + { + "value": "typically occupied" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "space typical state" + ], + "is_a": "core field", + "string_serialization": "[typically occupied|typically unoccupied]", + "slot_uri": "MIXS:0000770", + "multivalued": false, + "range": "string" + }, + "specific": { + "name": "specific", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents", + "title": "specifications", + "examples": [ + { + "value": "construction" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "specifications" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000836", + "multivalued": false, + "range": "specific_enum" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "is_a": "gold_path_field" + }, + "specific_humidity": { + "name": "specific_humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram of air, kilogram of air" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The mass of water vapour in a unit mass of moist air, usually expressed as grams of vapour per kilogram of air, or, in air conditioning, as grains per pound.", + "title": "specific humidity", + "examples": [ + { + "value": "15 per kilogram of air" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "specific humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000214", + "multivalued": false, + "range": "string" + }, + "sr_dep_env": { + "name": "sr_dep_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock depositional environment", + "examples": [ + { + "value": "Marine" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "source rock depositional environment" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000996", + "multivalued": false, + "range": "sr_dep_env_enum" + }, + "sr_geol_age": { + "name": "sr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "source rock geological age" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000997", + "multivalued": false, + "range": "sr_geol_age_enum" + }, + "sr_kerog_type": { + "name": "sr_kerog_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock kerogen type", + "examples": [ + { + "value": "Type IV" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "source rock kerogen type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000994", + "multivalued": false, + "range": "sr_kerog_type_enum" + }, + "sr_lithology": { + "name": "sr_lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock lithology", + "examples": [ + { + "value": "Coal" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "source rock lithology" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000995", + "multivalued": false, + "range": "sr_lithology_enum" + }, + "standing_water_regm": { + "name": "standing_water_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "standing water type;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "standing water regimen", + "examples": [ + { + "value": "standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "standing water regimen" + ], + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001069", + "multivalued": false, + "range": "string" + }, + "start_date_inc": { + "name": "start_date_inc", + "description": "Date the incubation was started. Only relevant for incubation samples.", + "title": "incubation start date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 4, + "string_serialization": "{date, arbitrary precision}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "start_time_inc": { + "name": "start_time_inc", + "description": "Time the incubation was started. Only relevant for incubation samples.", + "title": "incubation start time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 5, + "string_serialization": "{time, seconds optional}", + "slot_group": "MIxS Inspired", + "recommended": true + }, + "store_cond": { + "name": "store_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "storage condition type;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Explain how and for how long the soil sample was stored before DNA extraction (fresh/frozen/other).", + "title": "storage conditions", + "examples": [ + { + "value": "-20 degree Celsius freezer;P2Y10D" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "storage conditions" + ], + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000327", + "multivalued": false, + "range": "string" + }, + "substructure_type": { + "name": "substructure_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The substructure or under building is that largely hidden section of the building which is built off the foundations to the ground floor level", + "title": "substructure type", + "examples": [ + { + "value": "basement" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "substructure type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000767", + "multivalued": true, + "range": "substructure_type_enum" + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sulfate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "range": "string" + }, + "sulfate_fw": { + "name": "sulfate_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original sulfate concentration in the hydrocarbon resource", + "title": "sulfate in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sulfate in formation water" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000407", + "multivalued": false, + "range": "string" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "sulfide" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "range": "string" + }, + "surf_air_cont": { + "name": "surf_air_cont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Contaminant identified on surface", + "title": "surface-air contaminant", + "examples": [ + { + "value": "radon" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface-air contaminant" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000759", + "multivalued": true, + "range": "surf_air_cont_enum" + }, + "surf_humidity": { + "name": "surf_humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Surfaces: water activity as a function of air and material moisture", + "title": "surface humidity", + "examples": [ + { + "value": "10%" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface humidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000123", + "multivalued": false, + "range": "string" + }, + "surf_material": { + "name": "surf_material", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Surface materials at the point of sampling", + "title": "surface material", + "examples": [ + { + "value": "wood" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000758", + "multivalued": false, + "range": "surf_material_enum" + }, + "surf_moisture": { + "name": "surf_moisture", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million, gram per cubic meter, gram per square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Water held on a surface", + "title": "surface moisture", + "examples": [ + { + "value": "0.01 gram per square meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface moisture" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000128", + "multivalued": false, + "range": "string" + }, + "surf_moisture_ph": { + "name": "surf_moisture_ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "ph measurement of surface", + "title": "surface moisture pH", + "examples": [ + { + "value": "7" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface moisture pH" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000760", + "multivalued": false, + "range": "double" + }, + "surf_temp": { + "name": "surf_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature of the surface at the time of sampling", + "title": "surface temperature", + "examples": [ + { + "value": "15 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "surface temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000125", + "multivalued": false, + "range": "string" + }, + "suspend_part_matter": { + "name": "suspend_part_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of suspended particulate matter", + "title": "suspended particulate matter", + "examples": [ + { + "value": "0.5 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "suspended particulate matter" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000741", + "multivalued": false, + "range": "string" + }, + "suspend_solids": { + "name": "suspend_solids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "suspended solid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances", + "title": "suspended solids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "suspended solids" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000150", + "multivalued": false, + "range": "string" + }, + "tan": { + "name": "tan", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)", + "title": "total acid number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total acid number" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000120", + "multivalued": false, + "range": "string" + }, + "technical_reps": { + "name": "technical_reps", + "description": "If sending technical replicates of the same sample, indicate the replicate count.", + "title": "number technical replicate", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "string_serialization": "{integer}", + "slot_group": "EMSL", + "recommended": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "temperature" + ], + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "range": "string" + }, + "temp_out": { + "name": "temp_out", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The recorded temperature value at sampling time outside", + "title": "temperature outside house", + "examples": [ + { + "value": "5 degree Celsius" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "temperature outside house" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000197", + "multivalued": false, + "range": "string" + }, + "tertiary_treatment": { + "name": "tertiary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "tertiary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment", + "title": "tertiary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "tertiary treatment" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000352", + "multivalued": false, + "range": "string" + }, + "tidal_stage": { + "name": "tidal_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of tide", + "title": "tidal stage", + "examples": [ + { + "value": "high tide" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "tidal stage" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000750", + "multivalued": false, + "range": "tidal_stage_enum" + }, + "tillage": { + "name": "tillage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Note method(s) used for tilling", + "title": "history/tillage", + "examples": [ + { + "value": "chisel" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "history/tillage" + ], + "is_a": "core field", + "slot_uri": "MIXS:0001081", + "multivalued": true, + "range": "tillage_enum" + }, + "tiss_cult_growth_med": { + "name": "tiss_cult_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of plant tissue culture growth media used", + "title": "tissue culture growth media", + "examples": [ + { + "value": "https://link.springer.com/content/pdf/10.1007/BF02796489.pdf" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "tissue culture growth media" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001070", + "multivalued": false, + "range": "string" + }, + "toluene": { + "name": "toluene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of toluene in the sample", + "title": "toluene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "toluene" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000154", + "multivalued": false, + "range": "string" + }, + "tot_carb": { + "name": "tot_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total carbon content", + "title": "total carbon", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "range": "string" + }, + "tot_depth_water_col": { + "name": "tot_depth_water_col", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of total depth of water column", + "title": "total depth of water column", + "examples": [ + { + "value": "500 meter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total depth of water column" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000634", + "multivalued": false, + "range": "string" + }, + "tot_diss_nitro": { + "name": "tot_diss_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen", + "title": "total dissolved nitrogen", + "examples": [ + { + "value": "40 microgram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total dissolved nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000744", + "multivalued": false, + "range": "string" + }, + "tot_inorg_nitro": { + "name": "tot_inorg_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total inorganic nitrogen content", + "title": "total inorganic nitrogen", + "examples": [ + { + "value": "40 microgram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total inorganic nitrogen" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000745", + "multivalued": false, + "range": "string" + }, + "tot_iron": { + "name": "tot_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, milligram per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total iron in the sample", + "title": "total iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total iron" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000105", + "multivalued": false, + "range": "string" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen", + "title": "total nitrogen concentration", + "examples": [ + { + "value": "50 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total nitrogen concentration" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000102", + "multivalued": false, + "range": "string" + }, + "tot_nitro_cont_meth": { + "name": "tot_nitro_cont_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the total nitrogen", + "title": "total nitrogen content method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total nitrogen content method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000338", + "multivalued": false, + "range": "string" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total nitrogen content" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "range": "string" + }, + "tot_org_c_meth": { + "name": "tot_org_c_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining total organic carbon", + "title": "total organic carbon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total organic carbon method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000337", + "multivalued": false, + "range": "string" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram Carbon per kilogram sample material" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total organic carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "range": "string" + }, + "tot_part_carb": { + "name": "tot_part_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total particulate carbon content", + "title": "total particulate carbon", + "examples": [ + { + "value": "35 micromole per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total particulate carbon" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000747", + "multivalued": false, + "range": "string" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total phosphorus" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "range": "string" + }, + "tot_phosphate": { + "name": "tot_phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total amount or concentration of phosphate", + "title": "total phosphate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total phosphate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000689", + "multivalued": false, + "range": "string" + }, + "tot_sulfur": { + "name": "tot_sulfur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total sulfur in the sample", + "title": "total sulfur", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "total sulfur" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000419", + "multivalued": false, + "range": "string" + }, + "train_line": { + "name": "train_line", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The subway line name", + "title": "train line", + "examples": [ + { + "value": "red" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "train line" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000837", + "multivalued": false, + "range": "train_line_enum" + }, + "train_stat_loc": { + "name": "train_stat_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The train station collection location", + "title": "train station collection location", + "examples": [ + { + "value": "forest hills" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "train station collection location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000838", + "multivalued": false, + "range": "train_stat_loc_enum" + }, + "train_stop_loc": { + "name": "train_stop_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The train stop collection location", + "title": "train stop collection location", + "examples": [ + { + "value": "end" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "train stop collection location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000839", + "multivalued": false, + "range": "train_stop_loc_enum" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "turbidity" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "range": "string" + }, + "tvdss_of_hcr_press": { + "name": "tvdss_of_hcr_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m).", + "title": "depth (TVDSS) of hydrocarbon resource pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource pressure" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000397", + "multivalued": false, + "range": "string" + }, + "tvdss_of_hcr_temp": { + "name": "tvdss_of_hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m).", + "title": "depth (TVDSS) of hydrocarbon resource temperature", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource temperature" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000394", + "multivalued": false, + "range": "string" + }, + "typ_occup_density": { + "name": "typ_occup_density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Customary or normal density of occupants", + "title": "typical occupant density", + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "typical occupant density" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000771", + "multivalued": false, + "range": "double" + }, + "ventilation_rate": { + "name": "ventilation_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per minute, liters per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation rate of the system in the sampled premises", + "title": "ventilation rate", + "examples": [ + { + "value": "750 cubic meter per minute" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ventilation rate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000114", + "multivalued": false, + "range": "string" + }, + "ventilation_type": { + "name": "ventilation_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ventilation type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation system used in the sampled premises", + "title": "ventilation type", + "examples": [ + { + "value": "Operable windows" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "ventilation type" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000756", + "multivalued": false, + "range": "string" + }, + "vfa": { + "name": "vfa", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of Volatile Fatty Acids in the sample", + "title": "volatile fatty acids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "volatile fatty acids" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000152", + "multivalued": false, + "range": "string" + }, + "vfa_fw": { + "name": "vfa_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original volatile fatty acid concentration in the hydrocarbon resource", + "title": "vfa in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "vfa in formation water" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000408", + "multivalued": false, + "range": "string" + }, + "vis_media": { + "name": "vis_media", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building visual media", + "title": "visual media", + "examples": [ + { + "value": "3D scans" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "visual media" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000840", + "multivalued": false, + "range": "vis_media_enum" + }, + "viscosity": { + "name": "viscosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cP at degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)", + "title": "viscosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "viscosity" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000126", + "multivalued": false, + "range": "string" + }, + "volatile_org_comp": { + "name": "volatile_org_comp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "volatile organic compound name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per cubic meter, parts per million, nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound", + "title": "volatile organic compounds", + "examples": [ + { + "value": "formaldehyde;500 nanogram per liter" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "volatile organic compounds" + ], + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000115", + "multivalued": false, + "range": "string" + }, + "wall_area": { + "name": "wall_area", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total area of the sampled room's walls", + "title": "wall area", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall area" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000198", + "multivalued": false, + "range": "string" + }, + "wall_const_type": { + "name": "wall_const_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building class of the wall defined by the composition of the building elements and fire-resistance rating.", + "title": "wall construction type", + "examples": [ + { + "value": "fire resistive" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall construction type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000841", + "multivalued": false, + "range": "wall_const_type_enum" + }, + "wall_finish_mat": { + "name": "wall_finish_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The material utilized to finish the outer most layer of the wall", + "title": "wall finish material", + "examples": [ + { + "value": "wood" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall finish material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000842", + "multivalued": false, + "range": "wall_finish_mat_enum" + }, + "wall_height": { + "name": "wall_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average height of the walls in the sampled room", + "title": "wall height", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall height" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000221", + "multivalued": false, + "range": "string" + }, + "wall_loc": { + "name": "wall_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative location of the wall within the room", + "title": "wall location", + "examples": [ + { + "value": "north" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000843", + "multivalued": false, + "range": "wall_loc_enum" + }, + "wall_surf_treatment": { + "name": "wall_surf_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The surface treatment of interior wall", + "title": "wall surface treatment", + "examples": [ + { + "value": "paneling" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall surface treatment" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000845", + "multivalued": false, + "range": "wall_surf_treatment_enum" + }, + "wall_texture": { + "name": "wall_texture", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The feel, appearance, or consistency of a wall surface", + "title": "wall texture", + "examples": [ + { + "value": "popcorn" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall texture" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000846", + "multivalued": false, + "range": "wall_texture_enum" + }, + "wall_thermal_mass": { + "name": "wall_thermal_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "joule per degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The ability of the wall to provide inertia against temperature fluctuations. Generally this means concrete or concrete block that is either exposed or covered only with paint", + "title": "wall thermal mass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall thermal mass" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000222", + "multivalued": false, + "range": "string" + }, + "wall_water_mold": { + "name": "wall_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on a wall", + "title": "wall signs of water/mold", + "examples": [ + { + "value": "no presence of mold visible" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wall signs of water/mold" + ], + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000844", + "multivalued": false, + "range": "string" + }, + "wastewater_type": { + "name": "wastewater_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "wastewater type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The origin of wastewater such as human waste, rainfall, storm drains, etc.", + "title": "wastewater type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wastewater type" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000353", + "multivalued": false, + "range": "string" + }, + "water_cont_soil_meth": { + "name": "water_cont_soil_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the water content of soil", + "title": "water content method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water content method" + ], + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000323", + "multivalued": false, + "range": "string" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Water content measurement", + "title": "water content", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water content" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "range": "string" + }, + "water_current": { + "name": "water_current", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per second, knots" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of magnitude and direction of flow within a fluid", + "title": "water current", + "examples": [ + { + "value": "10 cubic meter per second" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water current" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000203", + "multivalued": false, + "range": "string" + }, + "water_cut": { + "name": "water_cut", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Current amount of water (%) in a produced fluid stream; or the average of the combined streams", + "title": "water cut", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water cut" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000454", + "multivalued": false, + "range": "string" + }, + "water_feat_size": { + "name": "water_feat_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The size of the water feature", + "title": "water feature size", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water feature size" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000223", + "multivalued": false, + "range": "string" + }, + "water_feat_type": { + "name": "water_feat_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of water feature present within the building being sampled", + "title": "water feature type", + "examples": [ + { + "value": "stream" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water feature type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000847", + "multivalued": false, + "range": "water_feat_type_enum" + }, + "water_prod_rate": { + "name": "water_prod_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Water production rates per well (e.g. 987 m3 / day)", + "title": "water production rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water production rate" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000453", + "multivalued": false, + "range": "string" + }, + "water_temp_regm": { + "name": "water_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "water temperature regimen", + "examples": [ + { + "value": "15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "water temperature regimen" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000590", + "multivalued": false, + "range": "string" + }, + "watering_regm": { + "name": "watering_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliliter, liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "watering regimen", + "examples": [ + { + "value": "1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "watering regimen" + ], + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000591", + "multivalued": false, + "range": "string" + }, + "weekday": { + "name": "weekday", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The day of the week when sampling occurred", + "title": "weekday", + "examples": [ + { + "value": "Sunday" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "weekday" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000848", + "multivalued": false, + "range": "weekday_enum" + }, + "win": { + "name": "win", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)", + "title": "well identification number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "well identification number" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000297", + "multivalued": false, + "range": "string" + }, + "wind_direction": { + "name": "wind_direction", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "wind direction name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Wind direction is the direction from which a wind originates", + "title": "wind direction", + "examples": [ + { + "value": "Northwest" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wind direction" + ], + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000757", + "multivalued": false, + "range": "string" + }, + "wind_speed": { + "name": "wind_speed", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second, kilometer per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Speed of wind measured at the time of sampling", + "title": "wind speed", + "examples": [ + { + "value": "21 kilometer per hour" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "wind speed" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000118", + "multivalued": false, + "range": "string" + }, + "window_cond": { + "name": "window_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the window at the time of sampling", + "title": "window condition", + "examples": [ + { + "value": "rupture" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window condition" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000849", + "multivalued": false, + "range": "window_cond_enum" + }, + "window_cover": { + "name": "window_cover", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of window covering", + "title": "window covering", + "examples": [ + { + "value": "curtains" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window covering" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000850", + "multivalued": false, + "range": "window_cover_enum" + }, + "window_horiz_pos": { + "name": "window_horiz_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The horizontal position of the window on the wall", + "title": "window horizontal position", + "examples": [ + { + "value": "middle" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window horizontal position" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000851", + "multivalued": false, + "range": "window_horiz_pos_enum" + }, + "window_loc": { + "name": "window_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative location of the window within the room", + "title": "window location", + "examples": [ + { + "value": "west" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window location" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000852", + "multivalued": false, + "range": "window_loc_enum" + }, + "window_mat": { + "name": "window_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material used to finish a window", + "title": "window material", + "examples": [ + { + "value": "wood" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window material" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000853", + "multivalued": false, + "range": "window_mat_enum" + }, + "window_open_freq": { + "name": "window_open_freq", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of times windows are opened per week", + "title": "window open frequency", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window open frequency" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000246", + "multivalued": false, + "range": "string" + }, + "window_size": { + "name": "window_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "inch, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The window's length and width", + "title": "window area/size", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window area/size" + ], + "is_a": "core field", + "string_serialization": "{float} {unit} x {float} {unit}", + "slot_uri": "MIXS:0000224", + "multivalued": false, + "range": "string" + }, + "window_status": { + "name": "window_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Defines whether the windows were open or closed during environmental testing", + "title": "window status", + "examples": [ + { + "value": "open" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window status" + ], + "is_a": "core field", + "string_serialization": "[closed|open]", + "slot_uri": "MIXS:0000855", + "multivalued": false, + "range": "string" + }, + "window_type": { + "name": "window_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of windows", + "title": "window type", + "examples": [ + { + "value": "fixed window" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window type" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000856", + "multivalued": false, + "range": "window_type_enum" + }, + "window_vert_pos": { + "name": "window_vert_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The vertical position of the window on the wall", + "title": "window vertical position", + "examples": [ + { + "value": "middle" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window vertical position" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000857", + "multivalued": false, + "range": "window_vert_pos_enum" + }, + "window_water_mold": { + "name": "window_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on the window.", + "title": "window signs of water/mold", + "examples": [ + { + "value": "no presence of mold visible" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "window signs of water/mold" + ], + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000854", + "multivalued": false, + "range": "string" + }, + "xylene": { + "name": "xylene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of xylene in the sample", + "title": "xylene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "xylene" + ], + "is_a": "core field", + "slot_uri": "MIXS:0000156", + "multivalued": false, + "range": "string" + }, + "zinc": { + "name": "zinc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg (ppm)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of zinc in the sample", + "title": "zinc", + "examples": [ + { + "value": "2.5 mg/kg" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "zinc" + ], + "is_a": "attribute", + "multivalued": false, + "range": "string" + }, + "gold_path_field": { + "name": "gold_path_field", + "description": "This is a grouping for any of the gold path fields", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "attribute", + "abstract": true, + "multivalued": false, + "range": "string" + }, + "nucleic acid sequence source field": { + "name": "nucleic acid sequence source field", + "from_schema": "https://example.com/nmdc_submission_schema", + "abstract": true + }, + "alternative_identifiers": { + "name": "alternative_identifiers", + "description": "A list of alternative identifiers for the entity.", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": false, + "range": "string" + }, + "attribute": { + "name": "attribute", + "description": "A attribute of a biosample. Examples: depth, habitat, material. For NMDC, attributes SHOULD be mapped to terms within a MIxS template", + "from_schema": "https://example.com/nmdc_submission_schema", + "aliases": [ + "field", + "property", + "template field", + "key", + "characteristic" + ], + "abstract": true + }, + "environment field": { + "name": "environment field", + "description": "field describing environmental aspect of a sample", + "from_schema": "https://example.com/nmdc_submission_schema", + "abstract": true + }, + "investigation field": { + "name": "investigation field", + "description": "field describing aspect of the investigation/study to which the sample belongs", + "from_schema": "https://example.com/nmdc_submission_schema", + "abstract": true + }, + "description": { + "name": "description", + "description": "a human-readable description of a thing", + "from_schema": "https://example.com/nmdc_submission_schema", + "slot_uri": "dcterms:description", + "multivalued": false, + "range": "string" + }, + "language": { + "name": "language", + "description": "Should use ISO 639-1 code e.g. \"en\", \"fr\"", + "from_schema": "https://example.com/nmdc_submission_schema", + "range": "language code" + }, + "name": { + "name": "name", + "description": "A human readable label for an entity", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": false, + "range": "string" + }, + "core field": { + "name": "core field", + "description": "basic fields", + "from_schema": "https://example.com/nmdc_submission_schema", + "abstract": true + }, + "id": { + "name": "id", + "description": "A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI", + "notes": [ + "abstracted pattern: prefix:typecode-authshoulder-blade(.version)?(_seqsuffix)?", + "a minimum length of 3 characters is suggested for typecodes, but 1 or 2 characters will be accepted", + "typecodes must correspond 1:1 to a class in the NMDC schema. this will be checked via per-class id slot usage assertions", + "minting authority shoulders should probably be enumerated and checked in the pattern" + ], + "examples": [ + { + "value": "nmdc:mgmag-00-x012.1_7_c1", + "description": "https://github.com/microbiomedata/nmdc-schema/pull/499#discussion_r1018499248" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "identifier": true, + "range": "uriorcurie", + "required": true + } + }, + "classes": { + "AirInterface": { + "name": "AirInterface", + "description": "air dh_interface", + "title": "Air", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "air_PM_concen", + "alt", + "barometric_press", + "carb_dioxide", + "carb_monoxide", + "chem_administration", + "collection_date", + "depth", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "geo_loc_name", + "horizon_meth", + "humidity", + "lat_lon", + "methane", + "misc_param", + "organism_count", + "oxy_stat_samp", + "oxygen", + "perturbation", + "pollutants", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "size_frac", + "solar_irradiance", + "specific_ecosystem", + "temp", + "ventilation_rate", + "ventilation_type", + "volatile_org_comp", + "wind_direction", + "wind_speed" + ], + "slot_usage": { + "air_PM_concen": { + "name": "air_PM_concen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particulate matter name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrograms per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM", + "title": "air particulate matter concentration", + "examples": [ + { + "value": "PM2.5;10 microgram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air particulate matter concentration" + ], + "rank": 48, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000108", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "barometric_press": { + "name": "barometric_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millibar" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Force per unit area exerted against a surface by the weight of air above that surface", + "title": "barometric pressure", + "examples": [ + { + "value": "5 millibar" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "barometric pressure" + ], + "rank": 49, + "is_a": "core field", + "slot_uri": "MIXS:0000096", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_dioxide": { + "name": "carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon dioxide (gas) amount or concentration at the time of sampling", + "title": "carbon dioxide", + "examples": [ + { + "value": "410 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon dioxide" + ], + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000097", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_monoxide": { + "name": "carb_monoxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon monoxide (gas) amount or concentration at the time of sampling", + "title": "carbon monoxide", + "examples": [ + { + "value": "0.1 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon monoxide" + ], + "rank": 51, + "is_a": "core field", + "slot_uri": "MIXS:0000098", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "humidity": { + "name": "humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Amount of water vapour in the air, at the time of sampling", + "title": "humidity", + "examples": [ + { + "value": "25 gram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000100", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "methane": { + "name": "methane", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per billion, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Methane (gas) amount or concentration at the time of sampling", + "title": "methane", + "examples": [ + { + "value": "1800 parts per billion" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "methane" + ], + "rank": 24, + "is_a": "core field", + "slot_uri": "MIXS:0000101", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "oxygen": { + "name": "oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oxygen (gas) amount or concentration at the time of sampling", + "title": "oxygen", + "examples": [ + { + "value": "600 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "oxygen" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000104", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "pollutants": { + "name": "pollutants", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pollutant name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter, microgram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant", + "title": "pollutants", + "examples": [ + { + "value": "lead;0.15 microgram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pollutants" + ], + "rank": 54, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000107", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "solar_irradiance": { + "name": "solar_irradiance", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilowatts per square meter per day, ergs per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of solar energy that arrives at a specific area of a surface during a specific time interval", + "title": "solar irradiance", + "examples": [ + { + "value": "1.36 kilowatts per square meter per day" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "solar irradiance" + ], + "rank": 55, + "is_a": "core field", + "slot_uri": "MIXS:0000112", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ventilation_rate": { + "name": "ventilation_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per minute, liters per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation rate of the system in the sampled premises", + "title": "ventilation rate", + "examples": [ + { + "value": "750 cubic meter per minute" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ventilation rate" + ], + "rank": 56, + "is_a": "core field", + "slot_uri": "MIXS:0000114", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ventilation_type": { + "name": "ventilation_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ventilation type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation system used in the sampled premises", + "title": "ventilation type", + "examples": [ + { + "value": "Operable windows" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ventilation type" + ], + "rank": 57, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000756", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "volatile_org_comp": { + "name": "volatile_org_comp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "volatile organic compound name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per cubic meter, parts per million, nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound", + "title": "volatile organic compounds", + "examples": [ + { + "value": "formaldehyde;500 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "volatile organic compounds" + ], + "rank": 58, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000115", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "wind_direction": { + "name": "wind_direction", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "wind direction name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Wind direction is the direction from which a wind originates", + "title": "wind direction", + "examples": [ + { + "value": "Northwest" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "wind direction" + ], + "rank": 59, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000757", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "wind_speed": { + "name": "wind_speed", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second, kilometer per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Speed of wind measured at the time of sampling", + "title": "wind speed", + "examples": [ + { + "value": "21 kilometer per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "wind speed" + ], + "rank": 60, + "is_a": "core field", + "slot_uri": "MIXS:0000118", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + } + }, + "attributes": { + "air_PM_concen": { + "name": "air_PM_concen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particulate matter name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrograms per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM", + "title": "air particulate matter concentration", + "examples": [ + { + "value": "PM2.5;10 microgram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air particulate matter concentration" + ], + "rank": 48, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000108", + "multivalued": false, + "alias": "air_PM_concen", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "alias": "alt", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "barometric_press": { + "name": "barometric_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millibar" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Force per unit area exerted against a surface by the weight of air above that surface", + "title": "barometric pressure", + "examples": [ + { + "value": "5 millibar" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "barometric pressure" + ], + "rank": 49, + "is_a": "core field", + "slot_uri": "MIXS:0000096", + "multivalued": false, + "alias": "barometric_press", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_dioxide": { + "name": "carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon dioxide (gas) amount or concentration at the time of sampling", + "title": "carbon dioxide", + "examples": [ + { + "value": "410 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon dioxide" + ], + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000097", + "multivalued": false, + "alias": "carb_dioxide", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_monoxide": { + "name": "carb_monoxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Carbon monoxide (gas) amount or concentration at the time of sampling", + "title": "carbon monoxide", + "examples": [ + { + "value": "0.1 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon monoxide" + ], + "rank": 51, + "is_a": "core field", + "slot_uri": "MIXS:0000098", + "multivalued": false, + "alias": "carb_monoxide", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "humidity": { + "name": "humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Amount of water vapour in the air, at the time of sampling", + "title": "humidity", + "examples": [ + { + "value": "25 gram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000100", + "multivalued": false, + "alias": "humidity", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "methane": { + "name": "methane", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per billion, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Methane (gas) amount or concentration at the time of sampling", + "title": "methane", + "examples": [ + { + "value": "1800 parts per billion" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "methane" + ], + "rank": 24, + "is_a": "core field", + "slot_uri": "MIXS:0000101", + "multivalued": false, + "alias": "methane", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "oxygen": { + "name": "oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oxygen (gas) amount or concentration at the time of sampling", + "title": "oxygen", + "examples": [ + { + "value": "600 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "oxygen" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000104", + "multivalued": false, + "alias": "oxygen", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "pollutants": { + "name": "pollutants", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pollutant name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter, microgram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant", + "title": "pollutants", + "examples": [ + { + "value": "lead;0.15 microgram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pollutants" + ], + "rank": 54, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000107", + "multivalued": false, + "alias": "pollutants", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "solar_irradiance": { + "name": "solar_irradiance", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilowatts per square meter per day, ergs per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of solar energy that arrives at a specific area of a surface during a specific time interval", + "title": "solar irradiance", + "examples": [ + { + "value": "1.36 kilowatts per square meter per day" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "solar irradiance" + ], + "rank": 55, + "is_a": "core field", + "slot_uri": "MIXS:0000112", + "multivalued": false, + "alias": "solar_irradiance", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ventilation_rate": { + "name": "ventilation_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per minute, liters per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation rate of the system in the sampled premises", + "title": "ventilation rate", + "examples": [ + { + "value": "750 cubic meter per minute" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ventilation rate" + ], + "rank": 56, + "is_a": "core field", + "slot_uri": "MIXS:0000114", + "multivalued": false, + "alias": "ventilation_rate", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ventilation_type": { + "name": "ventilation_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ventilation type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ventilation system used in the sampled premises", + "title": "ventilation type", + "examples": [ + { + "value": "Operable windows" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ventilation type" + ], + "rank": 57, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000756", + "multivalued": false, + "alias": "ventilation_type", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "volatile_org_comp": { + "name": "volatile_org_comp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "volatile organic compound name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per cubic meter, parts per million, nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound", + "title": "volatile organic compounds", + "examples": [ + { + "value": "formaldehyde;500 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "volatile organic compounds" + ], + "rank": 58, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000115", + "multivalued": false, + "alias": "volatile_org_comp", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "wind_direction": { + "name": "wind_direction", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "wind direction name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Wind direction is the direction from which a wind originates", + "title": "wind direction", + "examples": [ + { + "value": "Northwest" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "wind direction" + ], + "rank": 59, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000757", + "multivalued": false, + "alias": "wind_direction", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "wind_speed": { + "name": "wind_speed", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second, kilometer per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Speed of wind measured at the time of sampling", + "title": "wind speed", + "examples": [ + { + "value": "21 kilometer per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "wind speed" + ], + "rank": 60, + "is_a": "core field", + "slot_uri": "MIXS:0000118", + "multivalued": false, + "alias": "wind_speed", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "AirInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "AirInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "BiofilmInterface": { + "name": "BiofilmInterface", + "description": "biofilm dh_interface", + "title": "Biofilm", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "alkalinity", + "alkyl_diethers", + "alt", + "aminopept_act", + "ammonium", + "bacteria_carb_prod", + "biomass", + "bishomohopanol", + "bromide", + "calcium", + "carb_nitro_ratio", + "chem_administration", + "chloride", + "chlorophyll", + "collection_date", + "depth", + "diether_lipids", + "diss_carb_dioxide", + "diss_hydrogen", + "diss_inorg_carb", + "diss_org_carb", + "diss_org_nitro", + "diss_oxygen", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "geo_loc_name", + "glucosidase_act", + "horizon_meth", + "lat_lon", + "magnesium", + "mean_frict_vel", + "mean_peak_frict_vel", + "methane", + "misc_param", + "n_alkanes", + "nitrate", + "nitrite", + "nitro", + "org_carb", + "org_matter", + "org_nitro", + "organism_count", + "oxy_stat_samp", + "part_org_carb", + "perturbation", + "petroleum_hydrocarb", + "ph", + "ph_meth", + "phaeopigments", + "phosphate", + "phosplipid_fatt_acid", + "potassium", + "pressure", + "redox_potential", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "silicate", + "size_frac", + "sodium", + "specific_ecosystem", + "sulfate", + "sulfide", + "temp", + "tot_carb", + "tot_nitro_content", + "tot_org_carb", + "turbidity", + "water_content" + ], + "slot_usage": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkyl diethers" + ], + "rank": 2, + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aminopept_act": { + "name": "aminopept_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of aminopeptidase activity", + "title": "aminopeptidase activity", + "examples": [ + { + "value": "0.269 mole per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aminopeptidase activity" + ], + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000172", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bacteria_carb_prod": { + "name": "bacteria_carb_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial carbon production", + "title": "bacterial carbon production", + "examples": [ + { + "value": "2.53 microgram per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bacterial carbon production" + ], + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000173", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "bishomohopanol": { + "name": "bishomohopanol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, microgram per gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bishomohopanol", + "title": "bishomohopanol", + "examples": [ + { + "value": "14 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bishomohopanol" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000175", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bromide": { + "name": "bromide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bromide", + "title": "bromide", + "examples": [ + { + "value": "0.05 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bromide" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0000176", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon/nitrogen ratio" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "float", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chlorophyll": { + "name": "chlorophyll", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter, microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chlorophyll", + "title": "chlorophyll", + "examples": [ + { + "value": "5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chlorophyll" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000177", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "diether_lipids": { + "name": "diether_lipids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diether lipid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of diether lipids; can include multiple types of diether lipids", + "title": "diether lipids", + "examples": [ + { + "value": "0.2 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "diether lipids" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000178", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved hydrogen" + ], + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + "is_a": "core field", + "slot_uri": "MIXS:0000137", 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can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "petroleum_hydrocarb": { + "name": "petroleum_hydrocarb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of petroleum hydrocarbon", + "title": "petroleum hydrocarbon", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "petroleum hydrocarbon" + ], + "rank": 34, + "is_a": "core field", + "slot_uri": "MIXS:0000516", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phaeopigments": { + "name": "phaeopigments", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phaeopigment name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phaeopigments; can include multiple phaeopigments", + "title": "phaeopigments", + "examples": [ + { + "value": "2.5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phaeopigments" + ], + "rank": 35, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000180", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phospholipid fatty acid" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "redox_potential": { + "name": "redox_potential", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millivolt" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential", + "title": "redox potential", + "examples": [ + { + "value": "300 millivolt" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "redox potential" + ], + "rank": 40, + "is_a": "core field", + "slot_uri": "MIXS:0000182", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "turbidity" + ], + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + } + }, + "attributes": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "alias": "alkalinity", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkyl diethers" + ], + "rank": 2, + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "alias": "alkyl_diethers", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "alias": "alt", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aminopept_act": { + "name": "aminopept_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of aminopeptidase activity", + "title": "aminopeptidase activity", + "examples": [ + { + "value": "0.269 mole per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aminopeptidase activity" + ], + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000172", + "multivalued": false, + "alias": "aminopept_act", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "alias": "ammonium", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bacteria_carb_prod": { + "name": "bacteria_carb_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial carbon production", + "title": "bacterial carbon production", + "examples": [ + { + "value": "2.53 microgram per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bacterial carbon production" + ], + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000173", + "multivalued": false, + "alias": "bacteria_carb_prod", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "alias": "biomass", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "bishomohopanol": { + "name": "bishomohopanol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, microgram per gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bishomohopanol", + "title": "bishomohopanol", + "examples": [ + { + "value": "14 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bishomohopanol" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000175", + "multivalued": false, + "alias": "bishomohopanol", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bromide": { + "name": "bromide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bromide", + "title": "bromide", + "examples": [ + { + "value": "0.05 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bromide" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0000176", + "multivalued": false, + "alias": "bromide", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "alias": "calcium", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon/nitrogen ratio" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "alias": "carb_nitro_ratio", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "float", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "alias": "chloride", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chlorophyll": { + "name": "chlorophyll", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter, microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chlorophyll", + "title": "chlorophyll", + "examples": [ + { + "value": "5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chlorophyll" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000177", + "multivalued": false, + "alias": "chlorophyll", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "diether_lipids": { + "name": "diether_lipids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diether lipid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of diether lipids; can include multiple types of diether lipids", + "title": "diether lipids", + "examples": [ + { + "value": "0.2 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "diether lipids" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000178", + "multivalued": false, + "alias": "diether_lipids", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "alias": "diss_carb_dioxide", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved hydrogen" + ], + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "alias": "diss_hydrogen", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "alias": "diss_inorg_carb", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "alias": "diss_org_carb", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "alias": "diss_org_nitro", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "alias": "diss_oxygen", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + 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can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "petroleum_hydrocarb": { + "name": "petroleum_hydrocarb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of petroleum hydrocarbon", + "title": "petroleum hydrocarbon", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "petroleum hydrocarbon" + ], + "rank": 34, + "is_a": "core field", + "slot_uri": "MIXS:0000516", + "multivalued": false, + "alias": "petroleum_hydrocarb", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phaeopigments": { + "name": "phaeopigments", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phaeopigment name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phaeopigments; can include multiple phaeopigments", + "title": "phaeopigments", + "examples": [ + { + "value": "2.5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phaeopigments" + ], + "rank": 35, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000180", + "multivalued": false, + "alias": "phaeopigments", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "alias": "phosphate", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phospholipid fatty acid" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "alias": "phosplipid_fatt_acid", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "alias": "potassium", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "alias": "pressure", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "redox_potential": { + "name": "redox_potential", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millivolt" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential", + "title": "redox potential", + "examples": [ + { + "value": "300 millivolt" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "redox potential" + ], + "rank": 40, + "is_a": "core field", + "slot_uri": "MIXS:0000182", + "multivalued": false, + "alias": "redox_potential", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "alias": "silicate", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "alias": "sulfate", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "alias": "sulfide", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "alias": "tot_carb", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "alias": "tot_nitro_content", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "alias": "tot_org_carb", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "turbidity" + ], + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "alias": "turbidity", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "alias": "water_content", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "BiofilmInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "BuiltEnvInterface": { + "name": "BuiltEnvInterface", + "description": "built_env dh_interface", + "title": "Built Env", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "abs_air_humidity", + "address", + "adj_room", + "aero_struc", + "air_temp", + "alt", + "amount_light", + "arch_struc", + "avg_dew_point", + "avg_occup", + "avg_temp", + "bathroom_count", + "bedroom_count", + "build_docs", + "build_occup_type", + "building_setting", + "built_struc_age", + "built_struc_set", + "built_struc_type", + "carb_dioxide", + "ceil_area", + "ceil_cond", + "ceil_finish_mat", + "ceil_struc", + "ceil_texture", + "ceil_thermal_mass", + "ceil_type", + "ceil_water_mold", + "collection_date", + "cool_syst_id", + "date_last_rain", + "depth", + "dew_point", + "door_comp_type", + "door_cond", + "door_direct", + "door_loc", + "door_mat", + "door_move", + "door_size", + "door_type", + "door_type_metal", + "door_type_wood", + "door_water_mold", + "drawings", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "elevator", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "escalator", + "exp_duct", + "exp_pipe", + "experimental_factor", + "ext_door", + "ext_wall_orient", + "ext_window_orient", + "filter_type", + "fireplace_type", + "floor_age", + "floor_area", + "floor_cond", + "floor_count", + "floor_finish_mat", + "floor_struc", + "floor_thermal_mass", + "floor_water_mold", + "freq_clean", + "freq_cook", + "furniture", + "gender_restroom", + "geo_loc_name", + "hall_count", + "handidness", + "heat_cool_type", + "heat_deliv_loc", + "heat_sys_deliv_meth", + "heat_system_id", + "height_carper_fiber", + "horizon_meth", + "indoor_space", + "indoor_surf", + "inside_lux", + "int_wall_cond", + "last_clean", + "lat_lon", + "light_type", + "max_occup", + "mech_struc", + "number_pets", + "number_plants", + "number_resident", + "occup_density_samp", + "occup_document", + "occup_samp", + "organism_count", + "pres_animal_insect", + "quad_pos", + "rel_air_humidity", + "rel_humidity_out", + "rel_samp_loc", + "room_air_exch_rate", + "room_architec_elem", + "room_condt", + "room_connected", + "room_count", + "room_dim", + "room_door_dist", + "room_door_share", + "room_hallway", + "room_loc", + "room_moist_dam_hist", + "room_net_area", + "room_occup", + "room_samp_pos", + "room_type", + "room_vol", + "room_wall_share", + "room_window_count", + "samp_floor", + "samp_room_id", + "samp_sort_meth", + "samp_time_out", + "samp_weather", + "sample_link", + "season", + "season_use", + "shad_dev_water_mold", + "shading_device_cond", + "shading_device_loc", + "shading_device_mat", + "shading_device_type", + "size_frac", + "space_typ_state", + "specific", + "specific_ecosystem", + "specific_humidity", + "substructure_type", + "surf_air_cont", + "surf_humidity", + "surf_material", + "surf_moisture", + "surf_moisture_ph", + "surf_temp", + "temp", + "temp_out", + "train_line", + "train_stat_loc", + "train_stop_loc", + "typ_occup_density", + "ventilation_type", + "vis_media", + "wall_area", + "wall_const_type", + "wall_finish_mat", + "wall_height", + "wall_loc", + "wall_surf_treatment", + "wall_texture", + "wall_thermal_mass", + "wall_water_mold", + "water_feat_size", + "water_feat_type", + "weekday", + "window_cond", + "window_cover", + "window_horiz_pos", + "window_loc", + "window_mat", + "window_open_freq", + "window_size", + "window_status", + "window_type", + "window_vert_pos", + "window_water_mold" + ], + "slot_usage": { + "abs_air_humidity": { + "name": "abs_air_humidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram, kilogram per kilogram, kilogram, pound" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Actual mass of water vapor - mh20 - present in the air water vapor mixture", + "title": "absolute air humidity", + "examples": [ + { + "value": "9 gram per gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "absolute air humidity" + ], + "rank": 61, + "is_a": "core field", + "slot_uri": "MIXS:0000122", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "address": { + "name": "address", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The street name and building number where the sampling occurred.", + "title": "address", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "address" + ], + "rank": 62, + "is_a": "core field", + "string_serialization": "{integer}{text}", + "slot_uri": "MIXS:0000218", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "adj_room": { + "name": "adj_room", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of rooms (room number, room name) immediately adjacent to the sampling room", + "title": "adjacent rooms", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "adjacent rooms" + ], + "rank": 63, + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000219", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "aero_struc": { + "name": "aero_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together", + "title": "aerospace structure", + "examples": [ + { + "value": "plane" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aerospace structure" + ], + "rank": 64, + "is_a": "core field", + "string_serialization": "[plane|glider]", + "slot_uri": "MIXS:0000773", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "air_temp": { + "name": "air_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature of the air at the time of sampling", + "title": "air temperature", + "examples": [ + { + "value": "20 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air temperature" + ], + "rank": 65, + "is_a": "core field", + "slot_uri": "MIXS:0000124", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "amount_light": { + "name": "amount_light", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux, lumens per square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The unit of illuminance and luminous emittance, measuring luminous flux per unit area", + "title": "amount of light", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount of light" + ], + "rank": 66, + "is_a": "core field", + "slot_uri": "MIXS:0000140", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "arch_struc": { + "name": "arch_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "An architectural structure is a human-made, free-standing, immobile outdoor construction", + "title": "architectural structure", + "examples": [ + { + "value": "shed" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "architectural structure" + ], + "rank": 67, + "is_a": "core field", + "slot_uri": "MIXS:0000774", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "arch_struc_enum" + }, + "avg_dew_point": { + "name": "avg_dew_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day", + "title": "average dew point", + "examples": [ + { + "value": "25.5 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "average dew point" + ], + "rank": 68, + "is_a": "core field", + "slot_uri": "MIXS:0000141", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "avg_occup": { + "name": "avg_occup", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room.", + "title": "average daily occupancy", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "average daily occupancy" + ], + "rank": 69, + "is_a": "core field", + "slot_uri": "MIXS:0000775", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "avg_temp": { + "name": "avg_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day", + "title": "average temperature", + "examples": [ + { + "value": "12.5 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "average temperature" + ], + "rank": 70, + "is_a": "core field", + "slot_uri": "MIXS:0000142", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bathroom_count": { + "name": "bathroom_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of bathrooms in the building", + "title": "bathroom count", + "examples": [ + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bathroom count" + ], + "rank": 71, + "is_a": "core 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{ + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building design, construction and operation documents", + "title": "design, construction, and operation documents", + "examples": [ + { + "value": "maintenance plans" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "design, construction, and operation documents" + ], + "rank": 73, + "is_a": "core field", + "slot_uri": "MIXS:0000787", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "build_docs_enum" + }, + "build_occup_type": { + "name": "build_occup_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The primary function for which a building or discrete part of a building is intended to be used", + "title": "building occupancy type", + "examples": [ + { + "value": "market" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "building occupancy type" + ], + "rank": 74, + "is_a": "core field", + "slot_uri": "MIXS:0000761", + "multivalued": true, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "build_occup_type_enum" + }, + "building_setting": { + "name": "building_setting", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A location (geography) where a building is set", + "title": "building setting", + "examples": [ + { + "value": "rural" + } + ], + "from_schema": 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"aliases": [ + "door movement" + ], + "rank": 95, + "is_a": "core field", + "slot_uri": "MIXS:0000792", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_move_enum" + }, + "door_size": { + "name": "door_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The size of the door", + "title": "door area or size", + "examples": [ + { + "value": "2.5 square meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door area or size" + ], + "rank": 96, + "is_a": "core field", + "slot_uri": "MIXS:0000158", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "door_type": { + "name": "door_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of door material", + "title": "door type", + "examples": [ + { + "value": "wooden" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door type" + ], + "rank": 97, + "is_a": "core field", + "slot_uri": "MIXS:0000794", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_enum" + }, + "door_type_metal": { + "name": "door_type_metal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of metal door", + "title": "door type, metal", + "examples": [ + { + "value": "hollow" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door type, metal" + ], + "rank": 98, + "is_a": "core field", + "slot_uri": "MIXS:0000796", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_metal_enum" + }, + "door_type_wood": { + "name": "door_type_wood", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of wood door", + "title": "door type, wood", + "examples": [ + { + "value": "battened" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door type, wood" + ], + "rank": 99, + "is_a": "core field", + "slot_uri": "MIXS:0000797", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_wood_enum" + }, + "door_water_mold": { + "name": "door_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on a door", + "title": "door signs of water/mold", + "examples": [ + { + "value": "presence of mold visible" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door signs of water/mold" + ], + "rank": 100, + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000793", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "drawings": { + "name": "drawings", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents", + "title": "drawings", + "examples": [ + { + "value": "sketch" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "drawings" + ], + "rank": 101, + "is_a": "core field", + "slot_uri": "MIXS:0000798", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "drawings_enum" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "elevator": { + "name": "elevator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of elevators within the built structure", + "title": "elevator count", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "elevator count" + ], + "rank": 102, + "is_a": "core field", + "slot_uri": "MIXS:0000799", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "escalator": { + "name": "escalator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of escalators within the built structure", + "title": "escalator count", + "examples": [ + { + "value": "4" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "escalator count" + ], + "rank": 103, + "is_a": "core field", + "slot_uri": "MIXS:0000800", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "exp_duct": { + "name": "exp_duct", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of exposed ductwork in the room", + "title": "exposed ductwork", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exposed ductwork" + ], + "rank": 104, + "is_a": "core field", + "slot_uri": "MIXS:0000144", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "exp_pipe": { + "name": "exp_pipe", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exposed pipes in the room", + "title": "exposed pipes", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exposed pipes" + ], + "rank": 105, + "is_a": "core field", + "slot_uri": "MIXS:0000220", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "ext_door": { + "name": "ext_door", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exterior doors in the built structure", + "title": "exterior door count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exterior door count" + ], + "rank": 106, + "is_a": "core field", + "slot_uri": "MIXS:0000170", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ext_wall_orient": { + "name": "ext_wall_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The orientation of the exterior wall", + "title": "orientations of exterior wall", + "examples": [ + { + "value": "northwest" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "orientations of exterior wall" + ], + "rank": 107, + "is_a": "core field", + "slot_uri": "MIXS:0000817", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "ext_wall_orient_enum" + }, + "ext_window_orient": { + "name": "ext_window_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The compass direction the exterior window of the room is facing", + "title": "orientations of exterior window", + "examples": [ + { + "value": "southwest" + } + ], + "from_schema": 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This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season": { + "name": "season", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCIT:C94729" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729).", + "title": "season", + "examples": [ + { + "value": "autumn [NCIT:C94733]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "season" + ], + "rank": 172, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000829", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "season_use": { + "name": "season_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The seasons the space is occupied", + "title": "seasonal use", + "examples": [ + { + "value": "Winter" + } + ], + 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"alias": "door_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_enum" + }, + "door_type_metal": { + "name": "door_type_metal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of metal door", + "title": "door type, metal", + "examples": [ + { + "value": "hollow" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door type, metal" + ], + "rank": 98, + "is_a": "core field", + "slot_uri": "MIXS:0000796", + "multivalued": false, + "alias": "door_type_metal", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_metal_enum" + }, + "door_type_wood": { + "name": "door_type_wood", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of wood door", + "title": "door type, wood", + "examples": [ + { + "value": "battened" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door type, wood" + ], + "rank": 99, + "is_a": "core field", + "slot_uri": "MIXS:0000797", + "multivalued": false, + "alias": "door_type_wood", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "door_type_wood_enum" + }, + "door_water_mold": { + "name": "door_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on a door", + "title": "door signs of water/mold", + "examples": [ + { + "value": "presence of mold visible" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "door signs of water/mold" + ], + "rank": 100, + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000793", + "multivalued": false, + "alias": "door_water_mold", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "drawings": { + "name": "drawings", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents", + "title": "drawings", + "examples": [ + { + "value": "sketch" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "drawings" + ], + "rank": 101, + "is_a": "core field", + "slot_uri": "MIXS:0000798", + "multivalued": false, + "alias": "drawings", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "drawings_enum" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "elevator": { + "name": "elevator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of elevators within the built structure", + "title": "elevator count", + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "elevator count" + ], + "rank": 102, + "is_a": "core field", + "slot_uri": "MIXS:0000799", + "multivalued": false, + "alias": "elevator", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "escalator": { + "name": "escalator", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of escalators within the built structure", + "title": "escalator count", + "examples": [ + { + "value": "4" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "escalator count" + ], + "rank": 103, + "is_a": "core field", + "slot_uri": "MIXS:0000800", + "multivalued": false, + "alias": "escalator", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "exp_duct": { + "name": "exp_duct", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The amount of exposed ductwork in the room", + "title": "exposed ductwork", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exposed ductwork" + ], + "rank": 104, + "is_a": "core field", + "slot_uri": "MIXS:0000144", + "multivalued": false, + "alias": "exp_duct", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "exp_pipe": { + "name": "exp_pipe", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exposed pipes in the room", + "title": "exposed pipes", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exposed pipes" + ], + "rank": 105, + "is_a": "core field", + "slot_uri": "MIXS:0000220", + "multivalued": false, + "alias": "exp_pipe", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "ext_door": { + "name": "ext_door", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of exterior doors in the built structure", + "title": "exterior door count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "exterior door count" + ], + "rank": 106, + "is_a": "core field", + "slot_uri": "MIXS:0000170", + "multivalued": false, + "alias": "ext_door", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ext_wall_orient": { + "name": "ext_wall_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The orientation of the exterior wall", + "title": "orientations of exterior wall", + "examples": [ + { + "value": "northwest" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "orientations of exterior wall" + ], + "rank": 107, + "is_a": "core field", + "slot_uri": "MIXS:0000817", + "multivalued": false, + "alias": "ext_wall_orient", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "ext_wall_orient_enum" + }, + "ext_window_orient": { + "name": "ext_window_orient", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The compass direction the exterior window of the room is facing", + "title": "orientations of exterior window", + "examples": [ + { + "value": "southwest" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "orientations of exterior window" + ], + "rank": 108, + "is_a": "core field", + "slot_uri": "MIXS:0000818", + "multivalued": false, + "alias": "ext_window_orient", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "ext_window_orient_enum" + }, + "filter_type": { + "name": "filter_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "A device which removes solid particulates or airborne molecular contaminants", + "title": "filter type", + "examples": [ + { + "value": "HEPA" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "filter type" + ], + "rank": 109, + "is_a": "core field", + "slot_uri": "MIXS:0000765", + "multivalued": true, + "alias": "filter_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "filter_type_enum" + }, + "fireplace_type": { + "name": "fireplace_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A firebox with chimney", + "title": "fireplace type", + "examples": [ + { + "value": "wood burning" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fireplace type" + ], + "rank": 110, + "is_a": "core field", + "string_serialization": "[gas burning|wood burning]", + "slot_uri": "MIXS:0000802", + "multivalued": false, + "alias": "fireplace_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "floor_age": { + "name": "floor_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "years, weeks, days" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The time period since installment of the carpet or flooring", + "title": "floor age", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor age" + ], + "rank": 111, + "is_a": "core field", + "slot_uri": "MIXS:0000164", + "multivalued": false, + "alias": "floor_age", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "floor_area": { + "name": "floor_area", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "square meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The area of the floor space within the room", + "title": "floor area", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor area" + ], + "rank": 112, + "is_a": "core field", + "slot_uri": "MIXS:0000165", + "multivalued": false, + "alias": "floor_area", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "floor_cond": { + "name": "floor_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas", + "title": "floor condition", + "examples": [ + { + "value": "new" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor condition" + ], + "rank": 113, + "is_a": "core field", + "slot_uri": "MIXS:0000803", + "multivalued": false, + "alias": "floor_cond", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "floor_cond_enum" + }, + "floor_count": { + "name": "floor_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of floors in the building, including basements and mechanical penthouse", + "title": "floor count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor count" + ], + "rank": 114, + "is_a": "core field", + "slot_uri": "MIXS:0000225", + "multivalued": false, + "alias": "floor_count", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "floor_finish_mat": { + "name": "floor_finish_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The floor covering type; the finished surface that is walked on", + "title": "floor finish material", + "examples": [ + { + "value": "carpet" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor finish material" + ], + "rank": 115, + "is_a": "core field", + "slot_uri": "MIXS:0000804", + "multivalued": false, + "alias": "floor_finish_mat", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "floor_finish_mat_enum" + }, + "floor_struc": { + "name": "floor_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the structural elements and subfloor upon which the finish flooring is installed", + "title": "floor structure", + "examples": [ + { + "value": "concrete" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor structure" + ], + "rank": 116, + "is_a": "core field", + "slot_uri": "MIXS:0000806", + "multivalued": false, + "alias": "floor_struc", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "floor_struc_enum" + }, + "floor_thermal_mass": { + "name": "floor_thermal_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "joule per degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The ability of the floor to provide inertia against temperature fluctuations", + "title": "floor thermal mass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "floor thermal mass" + ], + "rank": 117, + "is_a": "core field", + "slot_uri": "MIXS:0000166", + "multivalued": false, + "alias": 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A room is any distinguishable space within a structure", + "title": "room type", + "examples": [ + { + "value": "bathroom" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "room type" + ], + "rank": 163, + "is_a": "core field", + "slot_uri": "MIXS:0000825", + "multivalued": false, + "alias": "room_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "room_type_enum" + }, + "room_vol": { + "name": "room_vol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic feet, cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Volume of sampling room", + "title": "room volume", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "room volume" + ], + "rank": 164, + "is_a": "core field", + "string_serialization": "{integer} {unit}", + "slot_uri": "MIXS:0000195", + "multivalued": false, + "alias": "room_vol", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "room_wall_share": { + "name": "room_wall_share", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "room name;room number" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of room(s) (room number, room name) sharing a wall with the sampling room", + "title": "rooms that share a wall with sampling room", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooms that share a wall with sampling room" + ], + "rank": 165, + "is_a": "core field", + "string_serialization": "{text};{integer}", + "slot_uri": "MIXS:0000243", + "multivalued": false, + "alias": "room_wall_share", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "room_window_count": { + "name": "room_window_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Number of windows in the room", + "title": "room window count", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "room window count" + ], + "rank": 166, + "is_a": "core field", + "slot_uri": "MIXS:0000237", + "multivalued": false, + "alias": "room_window_count", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "integer" + }, + "samp_floor": { + "name": "samp_floor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The floor of the building, where the sampling room is located", + "title": "sampling floor", + "examples": [ + { + "value": "4th floor" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sampling floor" + ], + "rank": 167, + "is_a": "core field", + "slot_uri": "MIXS:0000828", + "multivalued": false, + "alias": "samp_floor", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_floor_enum" + }, + "samp_room_id": { + "name": "samp_room_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sampling room number. This ID should be consistent with the designations on the building floor plans", + "title": "sampling room ID or name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sampling room ID or name" + ], + "rank": 168, + "is_a": "core field", + "slot_uri": "MIXS:0000244", + "multivalued": false, + "alias": "samp_room_id", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_sort_meth": { + "name": "samp_sort_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor.", + "title": "sample size sorting method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample size sorting method" + ], + "rank": 169, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000216", + "multivalued": false, + "alias": "samp_sort_meth", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_time_out": { + "name": "samp_time_out", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "time" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The recent and long term history of outside sampling", + "title": "sampling time outside", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sampling time outside" + ], + "rank": 170, + "is_a": "core field", + "slot_uri": "MIXS:0000196", + "multivalued": false, + "alias": "samp_time_out", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_weather": { + "name": "samp_weather", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The weather on the sampling day", + "title": "sampling day weather", + "examples": [ + { + "value": "foggy" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sampling day weather" + ], + "rank": 171, + "is_a": "core field", + "slot_uri": "MIXS:0000827", + "multivalued": false, + "alias": "samp_weather", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_weather_enum" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season": { + "name": "season", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCIT:C94729" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729).", + "title": "season", + "examples": [ + { + "value": "autumn [NCIT:C94733]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "season" + ], + "rank": 172, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000829", + "multivalued": false, + "alias": "season", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "season_use": { + "name": "season_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The seasons the space is occupied", + "title": "seasonal use", + "examples": [ + { + "value": "Winter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "seasonal use" + ], + "rank": 173, + "is_a": "core field", + "slot_uri": "MIXS:0000830", + "multivalued": false, + "alias": "season_use", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "season_use_enum" + }, + "shad_dev_water_mold": { + "name": "shad_dev_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on the shading device", + "title": "shading device signs of water/mold", + "examples": [ + { + "value": "no presence of mold visible" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "shading device 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"BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "shading_device_mat": { + "name": "shading_device_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "material name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The material the shading device is composed of", + "title": "shading device material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "shading device material" + ], + "rank": 177, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000245", + "multivalued": false, + "alias": "shading_device_mat", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + 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size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "space_typ_state": { + "name": "space_typ_state", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Customary or normal state of the space", + "title": "space typical state", + "examples": [ + { + "value": "typically occupied" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "space typical state" + ], + "rank": 179, + "is_a": "core field", + "string_serialization": "[typically occupied|typically unoccupied]", + "slot_uri": "MIXS:0000770", + "multivalued": false, + "alias": "space_typ_state", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "specific": { + "name": "specific", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents", + "title": "specifications", + "examples": [ + { + "value": "construction" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "specifications" + ], + "rank": 180, + "is_a": "core field", + "slot_uri": "MIXS:0000836", + "multivalued": false, + "alias": "specific", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "specific_enum" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + 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Generally this means concrete or concrete block that is either exposed or covered only with paint", + "title": "wall thermal mass", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "wall thermal mass" + ], + "rank": 202, + "is_a": "core field", + "slot_uri": "MIXS:0000222", + "multivalued": false, + "alias": "wall_thermal_mass", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "wall_water_mold": { + "name": "wall_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on a wall", + "title": "wall signs of water/mold", + "examples": [ + { + "value": 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"https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water feature size" + ], + "rank": 204, + "is_a": "core field", + "slot_uri": "MIXS:0000223", + "multivalued": false, + "alias": "water_feat_size", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_feat_type": { + "name": "water_feat_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of water feature present within the building being sampled", + "title": "water feature type", + "examples": [ + { + "value": "stream" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water feature type" + ], + "rank": 205, + "is_a": "core field", + "slot_uri": "MIXS:0000847", + "multivalued": false, + "alias": "water_feat_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "water_feat_type_enum" + }, + "weekday": { + "name": "weekday", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The day of the week when sampling occurred", + "title": "weekday", + "examples": [ + { + "value": "Sunday" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "weekday" + ], + "rank": 206, + "is_a": "core field", + "slot_uri": "MIXS:0000848", + "multivalued": false, + "alias": "weekday", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "weekday_enum" + }, + "window_cond": { + "name": "window_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The physical condition of the window at the time of sampling", + "title": "window condition", + "examples": [ + { + "value": "rupture" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window condition" + ], + "rank": 207, + "is_a": "core field", + "slot_uri": "MIXS:0000849", + "multivalued": false, + "alias": "window_cond", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_cond_enum" + }, + "window_cover": { + "name": "window_cover", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of window covering", + "title": "window covering", + "examples": [ + { + "value": "curtains" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window covering" + ], + "rank": 208, + "is_a": "core field", + "slot_uri": "MIXS:0000850", + "multivalued": false, + "alias": "window_cover", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_cover_enum" + }, + "window_horiz_pos": { + "name": "window_horiz_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The horizontal position of the window on the wall", + "title": "window horizontal position", + "examples": [ + { + "value": "middle" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window horizontal position" + ], + "rank": 209, + "is_a": "core field", + "slot_uri": "MIXS:0000851", + "multivalued": false, + "alias": "window_horiz_pos", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_horiz_pos_enum" + }, + "window_loc": { + "name": "window_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative location of the window within the room", + "title": "window location", + "examples": [ + { + "value": "west" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window location" + ], + "rank": 210, + "is_a": "core field", + "slot_uri": "MIXS:0000852", + "multivalued": false, + "alias": "window_loc", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_loc_enum" + }, + "window_mat": { + "name": "window_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material used to finish a window", + "title": "window material", + "examples": [ + { + "value": "wood" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window material" + ], + "rank": 211, + "is_a": "core field", + "slot_uri": "MIXS:0000853", + "multivalued": false, + "alias": "window_mat", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_mat_enum" + }, + "window_open_freq": { + "name": "window_open_freq", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The number of times windows are opened per week", + "title": "window open frequency", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window open frequency" + ], + "rank": 212, + "is_a": "core field", + "slot_uri": "MIXS:0000246", + "multivalued": false, + "alias": "window_open_freq", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "window_size": { + "name": "window_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "inch, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The window's length and width", + "title": "window area/size", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window area/size" + ], + "rank": 213, + "is_a": "core field", + "string_serialization": "{float} {unit} x {float} {unit}", + "slot_uri": "MIXS:0000224", + "multivalued": false, + "alias": "window_size", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "window_status": { + "name": "window_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Defines whether the windows were open or closed during environmental testing", + "title": "window status", + "examples": [ + { + "value": "open" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window status" + ], + "rank": 214, + "is_a": "core field", + "string_serialization": "[closed|open]", + "slot_uri": "MIXS:0000855", + "multivalued": false, + "alias": "window_status", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "window_type": { + "name": "window_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of windows", + "title": "window type", + "examples": [ + { + "value": "fixed window" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window type" + ], + "rank": 215, + "is_a": "core field", + "slot_uri": "MIXS:0000856", + "multivalued": false, + "alias": "window_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_type_enum" + }, + "window_vert_pos": { + "name": "window_vert_pos", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The vertical position of the window on the wall", + "title": "window vertical position", + "examples": [ + { + "value": "middle" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window vertical position" + ], + "rank": 216, + "is_a": "core field", + "slot_uri": "MIXS:0000857", + "multivalued": false, + "alias": "window_vert_pos", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "window_vert_pos_enum" + }, + "window_water_mold": { + "name": "window_water_mold", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Signs of the presence of mold or mildew on the window.", + "title": "window signs of water/mold", + "examples": [ + { + "value": "no presence of mold visible" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "window signs of water/mold" + ], + "rank": 217, + "is_a": "core field", + "string_serialization": "[presence of mold visible|no presence of mold visible]", + "slot_uri": "MIXS:0000854", + "multivalued": false, + "alias": "window_water_mold", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "BuiltEnvInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "BuiltEnvInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "EmslInterface": { + "name": "EmslInterface", + "description": "emsl dh_interface", + "title": "Emsl", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "emsl_store_temp", + "project_id", + "replicate_number", + "sample_shipped", + "sample_type", + "technical_reps", + "emsl_store_temp", + "project_id", + "replicate_number", + "sample_shipped", + "sample_type", + "technical_reps" + ], + "slot_usage": { + "emsl_store_temp": { + "name": "emsl_store_temp", + "description": "The temperature at which the sample should be stored upon delivery to EMSL", + "title": "EMSL sample storage temperature, deg. C", + "todos": [ + "add 'see_alsos' with link to NEXUS info" + ], + "comments": [ + "Enter a temperature in celsius. Numeric portion only." + ], + "examples": [ + { + "value": "-80" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "float", + "required": true, + "recommended": true + }, + "project_id": { + "name": "project_id", + "description": "Proposal IDs or names associated with dataset", + "title": "project ID", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "string", + "required": true, + "recommended": true + }, + "replicate_number": { + "name": "replicate_number", + "description": "If sending biological replicates, indicate the rep number here.", + "title": "replicate number", + "comments": [ + "This will guide staff in ensuring your samples are block & randomized correctly" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{integer}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "integer", + "recommended": true + }, + "sample_shipped": { + "name": "sample_shipped", + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL.", + "title": "sample shipped amount", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "15 g" + }, + { + "value": "100 uL" + }, + { + "value": "5 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{float} {unit}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "sample_type": { + "name": "sample_type", + "description": "Type of sample being submitted", + "title": "sample type", + "comments": [ + "This can vary from 'environmental package' if the sample is an extraction." + ], + "examples": [ + { + "value": "water extracted soil" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "sample_type_enum", + "required": true, + "recommended": true + }, + "technical_reps": { + "name": "technical_reps", + "description": "If sending technical replicates of the same sample, indicate the replicate count.", + "title": "number technical replicate", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{integer}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "integer", + "recommended": true + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "range": "OxyStatSampEnum" + } + }, + "attributes": { + "emsl_store_temp": { + "name": "emsl_store_temp", + "description": "The temperature at which the sample should be stored upon delivery to EMSL", + "title": "EMSL sample storage temperature, deg. C", + "todos": [ + "add 'see_alsos' with link to NEXUS info" + ], + "comments": [ + "Enter a temperature in celsius. Numeric portion only." + ], + "examples": [ + { + "value": "-80" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{float}", + "alias": "emsl_store_temp", + "owner": "EmslInterface", + "domain_of": [ + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "float", + "required": true, + "recommended": true + }, + "project_id": { + "name": "project_id", + "description": "Proposal IDs or names associated with dataset", + "title": "project ID", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "alias": "project_id", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "string", + "required": true, + "recommended": true + }, + "replicate_number": { + "name": "replicate_number", + "description": "If sending biological replicates, indicate the rep number here.", + "title": "replicate number", + "comments": [ + "This will guide staff in ensuring your samples are block & randomized correctly" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{integer}", + "alias": "replicate_number", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "integer", + "recommended": true + }, + "sample_shipped": { + "name": "sample_shipped", + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL.", + "title": "sample shipped amount", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "15 g" + }, + { + "value": "100 uL" + }, + { + "value": "5 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{float} {unit}", + "multivalued": false, + "alias": "sample_shipped", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "sample_type": { + "name": "sample_type", + "description": "Type of sample being submitted", + "title": "sample type", + "comments": [ + "This can vary from 'environmental package' if the sample is an extraction." + ], + "examples": [ + { + "value": "water extracted soil" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "alias": "sample_type", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "sample_type_enum", + "required": true, + "recommended": true + }, + "technical_reps": { + "name": "technical_reps", + "description": "If sending technical replicates of the same sample, indicate the replicate count.", + "title": "number technical replicate", + "comments": [ + "This field is only required when completing metadata for samples being submitted to EMSL for analyses." + ], + "examples": [ + { + "value": "2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{integer}", + "alias": "technical_reps", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "EmslInterface" + ], + "slot_group": "emsl_section", + "range": "integer", + "recommended": true + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "EmslInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "HcrCoresInterface": { + "name": "HcrCoresInterface", + "description": "hcr_cores dh_interface", + "title": "Hcr Cores", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "additional_info", + "alkalinity", + "alkalinity_method", + "ammonium", + "api", + "aromatics_pc", + "asphaltenes_pc", + "basin", + "benzene", + "calcium", + "chem_administration", + "chloride", + "collection_date", + "density", + "depos_env", + "depth", + "diss_carb_dioxide", + "diss_inorg_carb", + "diss_inorg_phosp", + "diss_iron", + "diss_org_carb", + "diss_oxygen_fluid", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "ethylbenzene", + "experimental_factor", + "field", + "geo_loc_name", + "hc_produced", + "hcr", + "hcr_fw_salinity", + "hcr_geol_age", + "hcr_pressure", + "hcr_temp", + "horizon_meth", + "lat_lon", + "lithology", + "magnesium", + "misc_param", + "nitrate", + "nitrite", + "org_count_qpcr_info", + "organism_count", + "owc_tvdss", + "oxy_stat_samp", + "permeability", + "ph", + "ph_meth", + "porosity", + "potassium", + "pour_point", + "pressure", + "reservoir", + "resins_pc", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_md", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "samp_subtype", + "samp_transport_cond", + "samp_tvdss", + "samp_type", + "samp_well_name", + "sample_link", + "saturates_pc", + "size_frac", + "sodium", + "specific_ecosystem", + "sr_dep_env", + "sr_geol_age", + "sr_kerog_type", + "sr_lithology", + "sulfate", + "sulfate_fw", + "sulfide", + "suspend_solids", + "tan", + "temp", + "toluene", + "tot_iron", + "tot_nitro", + "tot_phosp", + "tot_sulfur", + "tvdss_of_hcr_press", + "tvdss_of_hcr_temp", + "vfa", + "vfa_fw", + "viscosity", + "win", + "xylene" + ], + "slot_usage": { + "additional_info": { + "name": "additional_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary", + "title": "additional info", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "additional info" + ], + "rank": 290, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000300", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkalinity_method": { + "name": "alkalinity_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method used for alkalinity measurement", + "title": "alkalinity method", + "examples": [ + { + "value": "titration" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity method" + ], + "rank": 218, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000298", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "api": { + "name": "api", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degrees API" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)", + "title": "API gravity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "API gravity" + ], + "rank": 291, + "is_a": "core field", + "slot_uri": "MIXS:0000157", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aromatics_pc": { + "name": "aromatics_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "aromatics wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aromatics wt%" + ], + "rank": 292, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000133", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "asphaltenes_pc": { + "name": "asphaltenes_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "asphaltenes wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "asphaltenes wt%" + ], + "rank": 293, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000135", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "basin": { + "name": "basin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the basin (e.g. Campos)", + "title": "basin name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "basin name" + ], + "rank": 294, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000290", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "benzene": { + "name": "benzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of benzene in the sample", + "title": "benzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "benzene" + ], + "rank": 295, + "is_a": "core field", + "slot_uri": "MIXS:0000153", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "density" + ], + "rank": 12, + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "depos_env": { + "name": "depos_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "depositional environment", + "examples": [ + { + "value": "Continental - Alluvial" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depositional environment" + ], + "rank": 304, + "is_a": "core field", + "slot_uri": "MIXS:0000992", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "depos_env_enum" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + 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"HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen_fluid": { + "name": "diss_oxygen_fluid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).", + "title": "dissolved oxygen in fluids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen in fluids" + ], + "rank": 306, + "is_a": "core field", + "slot_uri": "MIXS:0000438", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "ethylbenzene": { + "name": "ethylbenzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ethylbenzene in the sample", + "title": "ethylbenzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ethylbenzene" + ], + "rank": 309, + "is_a": "core field", + "slot_uri": "MIXS:0000155", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "field": { + "name": "field", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the hydrocarbon field (e.g. Albacora)", + "title": "field name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "field name" + ], + "rank": 310, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000291", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "hc_produced": { + "name": "hc_produced", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon type produced", + "examples": [ + { + "value": "Gas" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon type produced" + ], + "rank": 313, + "is_a": "core field", + "slot_uri": "MIXS:0000989", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hc_produced_enum" + }, + "hcr": { + "name": "hcr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource type", + "examples": [ + { + "value": "Oil Sand" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource type" + ], + "rank": 314, + "is_a": "core field", + "slot_uri": "MIXS:0000988", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_enum" + }, + "hcr_fw_salinity": { + "name": "hcr_fw_salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS", + "title": "formation water salinity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "formation water salinity" + ], + "rank": 315, + "is_a": "core field", + "slot_uri": "MIXS:0000406", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "hcr_geol_age": { + "name": "hcr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource geological age" + ], + "rank": 316, + "is_a": "core field", + "slot_uri": "MIXS:0000993", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_geol_age_enum" + }, + "hcr_pressure": { + "name": "hcr_pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere, kilopascal" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original pressure of the hydrocarbon resource", + "title": "hydrocarbon resource original pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original pressure" + ], + "rank": 317, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000395", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "hcr_temp": { + "name": "hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original temperature of the hydrocarbon resource", + "title": "hydrocarbon resource original temperature", + "examples": [ + { + "value": "150-295 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original temperature" + ], + "rank": 318, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000393", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "lithology": { + "name": "lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "lithology", + "examples": [ + { + "value": "Volcanic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "lithology" + ], + "rank": 336, + "is_a": "core field", + "slot_uri": "MIXS:0000990", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "lithology_enum" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_count_qpcr_info": { + "name": "org_count_qpcr_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per gram (or ml or cm^2)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)", + "title": "organism count qPCR information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count qPCR information" + ], + "rank": 337, + "is_a": "core field", + "string_serialization": "{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles", + "slot_uri": "MIXS:0000099", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "owc_tvdss": { + "name": "owc_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the original oil water contact (OWC) zone (average) (m TVDSS)", + "title": "oil water contact depth", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "oil water contact depth" + ], + "rank": 339, + "is_a": "core field", + "slot_uri": "MIXS:0000405", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "permeability": { + "name": "permeability", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mD" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))", + "title": "permeability", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "permeability" + ], + "rank": 340, + "is_a": "core field", + "string_serialization": "{integer} - {integer} {unit}", + "slot_uri": "MIXS:0000404", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "porosity": { + "name": "porosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Porosity of deposited sediment is volume of voids divided by the total volume of sample", + "title": "porosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "porosity" + ], + "rank": 37, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000211", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pour_point": { + "name": "pour_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)", + "title": "pour point", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pour point" + ], + "rank": 341, + "is_a": "core field", + "slot_uri": "MIXS:0000127", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "reservoir": { + "name": "reservoir", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the reservoir (e.g. Carapebus)", + "title": "reservoir name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "reservoir name" + ], + "rank": 347, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000303", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "resins_pc": { + "name": "resins_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "resins wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "resins wt%" + ], + "rank": 348, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000134", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_md": { + "name": "samp_md", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample measured depth", + "examples": [ + { + "value": "1534 meter;MSL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample measured depth" + ], + "rank": 351, + "is_a": "core field", + "slot_uri": "MIXS:0000413", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_subtype": { + "name": "samp_subtype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample subtype", + "examples": [ + { + "value": "biofilm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample subtype" + ], + "rank": 354, + "is_a": "core field", + "slot_uri": "MIXS:0000999", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_subtype_enum" + }, + "samp_transport_cond": { + "name": "samp_transport_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "days;degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)", + "title": "sample transport conditions", + "examples": [ + { + "value": "5 days;-20 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample transport conditions" + ], + "rank": 355, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000410", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_tvdss": { + "name": "samp_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m", + "title": "sample true vertical depth subsea", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample true vertical depth subsea" + ], + "rank": 356, + "is_a": "core field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000409", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_type": { + "name": "samp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "GENEPIO:0001246" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).", + "title": "sample type", + "examples": [ + { + "value": "built environment sample [GENEPIO:0001248]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample type" + ], + "rank": 357, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000998", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "samp_well_name": { + "name": "samp_well_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the well (e.g. BXA1123) where sample was taken", + "title": "sample well name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample well name" + ], + "rank": 358, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000296", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "saturates_pc": { + "name": "saturates_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "saturates wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "saturates wt%" + ], + "rank": 359, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000131", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sr_dep_env": { + "name": "sr_dep_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock depositional environment", + "examples": [ + { + "value": "Marine" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock depositional environment" + ], + "rank": 366, + "is_a": "core field", + "slot_uri": "MIXS:0000996", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_dep_env_enum" + }, + "sr_geol_age": { + "name": "sr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock geological age" + ], + "rank": 367, + "is_a": "core field", + "slot_uri": "MIXS:0000997", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_geol_age_enum" + }, + "sr_kerog_type": { + "name": "sr_kerog_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). 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Can also be used to propose new entries for fields with controlled vocabulary", + "title": "additional info", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "additional info" + ], + "rank": 290, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000300", + "multivalued": false, + "alias": "additional_info", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "alias": "alkalinity", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkalinity_method": { + "name": "alkalinity_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method used for alkalinity measurement", + "title": "alkalinity method", + "examples": [ + { + "value": "titration" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity method" + ], + "rank": 218, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000298", + "multivalued": false, + "alias": "alkalinity_method", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "alias": "ammonium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "api": { + "name": "api", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degrees API" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)", + "title": "API gravity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "API gravity" + ], + "rank": 291, + "is_a": "core field", + "slot_uri": "MIXS:0000157", + "multivalued": false, + "alias": "api", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aromatics_pc": { + "name": "aromatics_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "aromatics wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aromatics wt%" + ], + "rank": 292, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000133", + "multivalued": false, + "alias": "aromatics_pc", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "asphaltenes_pc": { + "name": "asphaltenes_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "asphaltenes wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "asphaltenes wt%" + ], + "rank": 293, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000135", + "multivalued": false, + "alias": "asphaltenes_pc", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "basin": { + "name": "basin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the basin (e.g. Campos)", + "title": "basin name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "basin name" + ], + "rank": 294, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000290", + "multivalued": false, + "alias": "basin", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "benzene": { + "name": "benzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of benzene in the sample", + "title": "benzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "benzene" + ], + "rank": 295, + "is_a": "core field", + "slot_uri": "MIXS:0000153", + "multivalued": false, + "alias": "benzene", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "alias": "calcium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "alias": "chloride", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "density" + ], + "rank": 12, + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "alias": "density", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "depos_env": { + "name": "depos_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "depositional environment", + "examples": [ + { + "value": "Continental - Alluvial" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depositional environment" + ], + "rank": 304, + "is_a": "core field", + "slot_uri": "MIXS:0000992", + "multivalued": false, + "alias": "depos_env", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "depos_env_enum" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "alias": "diss_carb_dioxide", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "alias": "diss_inorg_carb", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_phosp": { + "name": "diss_inorg_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved inorganic phosphorus in the sample", + "title": "dissolved inorganic phosphorus", + "examples": [ + { + "value": "56.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic phosphorus" + ], + "rank": 224, + "is_a": "core field", + "slot_uri": "MIXS:0000106", + "multivalued": false, + "alias": "diss_inorg_phosp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_iron": { + "name": "diss_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved iron in the sample", + "title": "dissolved iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved iron" + ], + "rank": 305, + "is_a": "core field", + "slot_uri": "MIXS:0000139", + "multivalued": false, + "alias": "diss_iron", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "alias": "diss_org_carb", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen_fluid": { + "name": "diss_oxygen_fluid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).", + "title": "dissolved oxygen in fluids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen in fluids" + ], + "rank": 306, + "is_a": "core field", + "slot_uri": "MIXS:0000438", + "multivalued": false, + "alias": "diss_oxygen_fluid", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "ethylbenzene": { + "name": "ethylbenzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ethylbenzene in the sample", + "title": "ethylbenzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ethylbenzene" + ], + "rank": 309, + "is_a": "core field", + "slot_uri": "MIXS:0000155", + "multivalued": false, + "alias": "ethylbenzene", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "field": { + "name": "field", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the hydrocarbon field (e.g. Albacora)", + "title": "field name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "field name" + ], + "rank": 310, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000291", + "multivalued": false, + "alias": "field", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "hc_produced": { + "name": "hc_produced", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon type produced", + "examples": [ + { + "value": "Gas" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon type produced" + ], + "rank": 313, + "is_a": "core field", + "slot_uri": "MIXS:0000989", + "multivalued": false, + "alias": "hc_produced", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hc_produced_enum" + }, + "hcr": { + "name": "hcr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource type", + "examples": [ + { + "value": "Oil Sand" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource type" + ], + "rank": 314, + "is_a": "core field", + "slot_uri": "MIXS:0000988", + "multivalued": false, + "alias": "hcr", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_enum" + }, + "hcr_fw_salinity": { + "name": "hcr_fw_salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS", + "title": "formation water salinity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "formation water salinity" + ], + "rank": 315, + "is_a": "core field", + "slot_uri": "MIXS:0000406", + "multivalued": false, + "alias": "hcr_fw_salinity", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "hcr_geol_age": { + "name": "hcr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource geological age" + ], + "rank": 316, + "is_a": "core field", + "slot_uri": "MIXS:0000993", + "multivalued": false, + "alias": "hcr_geol_age", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_geol_age_enum" + }, + "hcr_pressure": { + "name": "hcr_pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere, kilopascal" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original pressure of the hydrocarbon resource", + "title": "hydrocarbon resource original pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original pressure" + ], + "rank": 317, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000395", + "multivalued": false, + "alias": "hcr_pressure", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "hcr_temp": { + "name": "hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original temperature of the hydrocarbon resource", + "title": "hydrocarbon resource original temperature", + "examples": [ + { + "value": "150-295 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original temperature" + ], + "rank": 318, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000393", + "multivalued": false, + "alias": "hcr_temp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "lithology": { + "name": "lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "lithology", + "examples": [ + { + "value": "Volcanic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "lithology" + ], + "rank": 336, + "is_a": "core field", + "slot_uri": "MIXS:0000990", + "multivalued": false, + "alias": "lithology", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "lithology_enum" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "alias": "magnesium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "alias": "nitrate", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "alias": "nitrite", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_count_qpcr_info": { + "name": "org_count_qpcr_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per gram (or ml or cm^2)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)", + "title": "organism count qPCR information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count qPCR information" + ], + "rank": 337, + "is_a": "core field", + "string_serialization": "{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles", + "slot_uri": "MIXS:0000099", + "multivalued": false, + "alias": "org_count_qpcr_info", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "owc_tvdss": { + "name": "owc_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the original oil water contact (OWC) zone (average) (m TVDSS)", + "title": "oil water contact depth", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "oil water contact depth" + ], + "rank": 339, + "is_a": "core field", + "slot_uri": "MIXS:0000405", + "multivalued": false, + "alias": "owc_tvdss", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "permeability": { + "name": "permeability", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mD" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))", + "title": "permeability", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "permeability" + ], + "rank": 340, + "is_a": "core field", + "string_serialization": "{integer} - {integer} {unit}", + "slot_uri": "MIXS:0000404", + "multivalued": false, + "alias": "permeability", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "porosity": { + "name": "porosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Porosity of deposited sediment is volume of voids divided by the total volume of sample", + "title": "porosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "porosity" + ], + "rank": 37, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000211", + "multivalued": false, + "alias": "porosity", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "alias": "potassium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pour_point": { + "name": "pour_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)", + "title": "pour point", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pour point" + ], + "rank": 341, + "is_a": "core field", + "slot_uri": "MIXS:0000127", + "multivalued": false, + "alias": "pour_point", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "alias": "pressure", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "reservoir": { + "name": "reservoir", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the reservoir (e.g. Carapebus)", + "title": "reservoir name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "reservoir name" + ], + "rank": 347, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000303", + "multivalued": false, + "alias": "reservoir", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "resins_pc": { + "name": "resins_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "resins wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "resins wt%" + ], + "rank": 348, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000134", + "multivalued": false, + "alias": "resins_pc", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_md": { + "name": "samp_md", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample measured depth", + "examples": [ + { + "value": "1534 meter;MSL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample measured depth" + ], + "rank": 351, + "is_a": "core field", + "slot_uri": "MIXS:0000413", + "multivalued": false, + "alias": "samp_md", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_subtype": { + "name": "samp_subtype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample subtype", + "examples": [ + { + "value": "biofilm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample subtype" + ], + "rank": 354, + "is_a": "core field", + "slot_uri": "MIXS:0000999", + "multivalued": false, + "alias": "samp_subtype", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_subtype_enum" + }, + "samp_transport_cond": { + "name": "samp_transport_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "days;degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)", + "title": "sample transport conditions", + "examples": [ + { + "value": "5 days;-20 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample transport conditions" + ], + "rank": 355, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000410", + "multivalued": false, + "alias": "samp_transport_cond", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_tvdss": { + "name": "samp_tvdss", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value or measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m", + "title": "sample true vertical depth subsea", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample true vertical depth subsea" + ], + "rank": 356, + "is_a": "core field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000409", + "multivalued": false, + "alias": "samp_tvdss", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_type": { + "name": "samp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "GENEPIO:0001246" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).", + "title": "sample type", + "examples": [ + { + "value": "built environment sample [GENEPIO:0001248]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample type" + ], + "rank": 357, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000998", + "multivalued": false, + "alias": "samp_type", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "samp_well_name": { + "name": "samp_well_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the well (e.g. BXA1123) where sample was taken", + "title": "sample well name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample well name" + ], + "rank": 358, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000296", + "multivalued": false, + "alias": "samp_well_name", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "saturates_pc": { + "name": "saturates_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "saturates wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "saturates wt%" + ], + "rank": 359, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000131", + "multivalued": false, + "alias": "saturates_pc", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sr_dep_env": { + "name": "sr_dep_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock depositional environment", + "examples": [ + { + "value": "Marine" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock depositional environment" + ], + "rank": 366, + "is_a": "core field", + "slot_uri": "MIXS:0000996", + "multivalued": false, + "alias": "sr_dep_env", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_dep_env_enum" + }, + "sr_geol_age": { + "name": "sr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock geological age" + ], + "rank": 367, + "is_a": "core field", + "slot_uri": "MIXS:0000997", + "multivalued": false, + "alias": "sr_geol_age", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_geol_age_enum" + }, + "sr_kerog_type": { + "name": "sr_kerog_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock kerogen type", + "examples": [ + { + "value": "Type IV" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock kerogen type" + ], + "rank": 368, + "is_a": "core field", + "slot_uri": "MIXS:0000994", + "multivalued": false, + "alias": "sr_kerog_type", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_kerog_type_enum" + }, + "sr_lithology": { + "name": "sr_lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "source rock lithology", + "examples": [ + { + "value": "Coal" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "source rock lithology" + ], + "rank": 369, + "is_a": "core field", + "slot_uri": "MIXS:0000995", + "multivalued": false, + "alias": "sr_lithology", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface" + ], + "slot_group": "mixs_core_section", + "range": "sr_lithology_enum" + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "alias": "sulfate", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfate_fw": { + "name": "sulfate_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original sulfate concentration in the hydrocarbon resource", + "title": "sulfate in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate in formation water" + ], + "rank": 370, + "is_a": "core field", + "slot_uri": "MIXS:0000407", + "multivalued": false, + "alias": "sulfate_fw", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "alias": "sulfide", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "suspend_solids": { + "name": "suspend_solids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "suspended solid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances", + "title": "suspended solids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "suspended solids" + ], + "rank": 372, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000150", + "multivalued": false, + "alias": "suspend_solids", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "tan": { + "name": "tan", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)", + "title": "total acid number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total acid number" + ], + "rank": 373, + "is_a": "core field", + "slot_uri": "MIXS:0000120", + "multivalued": false, + "alias": "tan", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "toluene": { + "name": "toluene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of toluene in the sample", + "title": "toluene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "toluene" + ], + "rank": 375, + "is_a": "core field", + "slot_uri": "MIXS:0000154", + "multivalued": false, + "alias": "toluene", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_iron": { + "name": "tot_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, milligram per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total iron in the sample", + "title": "total iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total iron" + ], + "rank": 376, + "is_a": "core field", + "slot_uri": "MIXS:0000105", + "multivalued": false, + "alias": "tot_iron", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen", + "title": "total nitrogen concentration", + "examples": [ + { + "value": "50 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total nitrogen concentration" + ], + "rank": 377, + "is_a": "core field", + "slot_uri": "MIXS:0000102", + "multivalued": false, + "alias": "tot_nitro", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total phosphorus" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "alias": "tot_phosp", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_sulfur": { + "name": "tot_sulfur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total sulfur in the sample", + "title": "total sulfur", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total sulfur" + ], + "rank": 379, + "is_a": "core field", + "slot_uri": "MIXS:0000419", + "multivalued": false, + "alias": "tot_sulfur", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tvdss_of_hcr_press": { + "name": "tvdss_of_hcr_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + 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+ "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original volatile fatty acid concentration in the hydrocarbon resource", + "title": "vfa in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "vfa in formation water" + ], + "rank": 383, + "is_a": "core field", + "slot_uri": "MIXS:0000408", + "multivalued": false, + "alias": "vfa_fw", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "viscosity": { + "name": "viscosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cP at degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)", + "title": "viscosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "viscosity" + ], + "rank": 384, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000126", + "multivalued": false, + "alias": "viscosity", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "win": { + "name": "win", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)", + "title": "well identification number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "well identification number" + ], + "rank": 388, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000297", + "multivalued": false, + "alias": "win", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "xylene": { + "name": "xylene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of xylene in the sample", + "title": "xylene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "xylene" + ], + "rank": 389, + "is_a": "core field", + "slot_uri": "MIXS:0000156", + "multivalued": false, + "alias": "xylene", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "HcrCoresInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "HcrFluidsSwabsInterface": { + "name": "HcrFluidsSwabsInterface", + "description": "hcr_fluids_swabs dh_interface", + "title": "Hcr Fluids Swabs", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "add_recov_method", + "additional_info", + "alkalinity", + "alkalinity_method", + "ammonium", + "api", + "aromatics_pc", + "asphaltenes_pc", + "basin", + "benzene", + "biocide", + "biocide_admin_method", + "calcium", + "chem_administration", + "chem_treat_method", + "chem_treatment", + "chloride", + "collection_date", + "density", + "depos_env", + "depth", + "diss_carb_dioxide", + "diss_inorg_carb", + "diss_inorg_phosp", + "diss_iron", + "diss_org_carb", + "diss_oxygen_fluid", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "ethylbenzene", + "experimental_factor", + "field", + "geo_loc_name", + "hc_produced", + "hcr", + "hcr_fw_salinity", + "hcr_geol_age", + "hcr_pressure", + "hcr_temp", + "horizon_meth", + "iw_bt_date_well", + "iwf", + "lat_lon", + "lithology", + "magnesium", + "misc_param", + "nitrate", + "nitrite", + "org_count_qpcr_info", + "organism_count", + "oxy_stat_samp", + "ph", + "ph_meth", + "potassium", + "pour_point", + "pressure", + "prod_rate", + "prod_start_date", + "reservoir", + "resins_pc", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_collect_point", + "samp_loc_corr_rate", + "samp_mat_process", + "samp_preserv", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "samp_subtype", + "samp_transport_cond", + "samp_type", + "samp_well_name", + "sample_link", + "saturates_pc", + "size_frac", + "sodium", + "specific_ecosystem", + "sulfate", + "sulfate_fw", + "sulfide", + "suspend_solids", + "tan", + "temp", + "toluene", + "tot_iron", + "tot_nitro", + "tot_phosp", + "tot_sulfur", + "tvdss_of_hcr_press", + "tvdss_of_hcr_temp", + "vfa", + "vfa_fw", + "viscosity", + "water_cut", + "water_prod_rate", + "win", + "xylene" + ], + "slot_usage": { + "add_recov_method": { + "name": "add_recov_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "secondary and tertiary recovery methods and start date", + "examples": [ + { + "value": "Polymer Addition;2018-06-21T14:30Z" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "secondary and tertiary recovery methods and start date" + ], + "rank": 289, + "is_a": "core field", + "slot_uri": "MIXS:0001009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "additional_info": { + "name": "additional_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary", + "title": "additional info", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "additional info" + ], + "rank": 290, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000300", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkalinity_method": { + "name": "alkalinity_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method used for alkalinity measurement", + "title": "alkalinity method", + "examples": [ + { + "value": "titration" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity method" + ], + "rank": 218, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000298", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "api": { + "name": "api", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degrees API" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)", + "title": "API gravity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "API gravity" + ], + "rank": 291, + "is_a": "core field", + "slot_uri": "MIXS:0000157", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aromatics_pc": { + "name": "aromatics_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "aromatics wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aromatics wt%" + ], + "rank": 292, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000133", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? 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DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "density" + ], + "rank": 12, + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "depos_env": { + "name": "depos_env", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). 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"domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen_fluid": { + "name": "diss_oxygen_fluid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).", + "title": "dissolved oxygen in fluids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen in fluids" + ], + "rank": 306, + "is_a": "core field", + "slot_uri": "MIXS:0000438", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "ethylbenzene": { + "name": "ethylbenzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ethylbenzene in the sample", + "title": "ethylbenzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ethylbenzene" + ], + "rank": 309, + "is_a": "core field", + "slot_uri": "MIXS:0000155", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "field": { + "name": "field", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the hydrocarbon field (e.g. Albacora)", + "title": "field name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "field name" + ], + "rank": 310, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000291", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "hc_produced": { + "name": "hc_produced", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon type produced", + "examples": [ + { + "value": "Gas" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon type produced" + ], + "rank": 313, + "is_a": "core field", + "slot_uri": "MIXS:0000989", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hc_produced_enum" + }, + "hcr": { + "name": "hcr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource type", + "examples": [ + { + "value": "Oil Sand" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource type" + ], + "rank": 314, + "is_a": "core field", + "slot_uri": "MIXS:0000988", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_enum" + }, + "hcr_fw_salinity": { + "name": "hcr_fw_salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS", + "title": "formation water salinity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "formation water salinity" + ], + "rank": 315, + "is_a": "core field", + "slot_uri": "MIXS:0000406", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "hcr_geol_age": { + "name": "hcr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource geological age" + ], + "rank": 316, + "is_a": "core field", + "slot_uri": "MIXS:0000993", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_geol_age_enum" + }, + "hcr_pressure": { + "name": "hcr_pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere, kilopascal" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original pressure of the hydrocarbon resource", + "title": "hydrocarbon resource original pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original pressure" + ], + "rank": 317, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000395", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "hcr_temp": { + "name": "hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original temperature of the hydrocarbon resource", + "title": "hydrocarbon resource original temperature", + "examples": [ + { + "value": "150-295 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original temperature" + ], + "rank": 318, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000393", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "iw_bt_date_well": { + "name": "iw_bt_date_well", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Injection water breakthrough date per well following a secondary and/or tertiary recovery", + "title": "injection water breakthrough date of specific well", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "injection water breakthrough date of specific well" + ], + "rank": 334, + "is_a": "core field", + "slot_uri": "MIXS:0001010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "iwf": { + "name": "iwf", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%)", + "title": "injection water fraction", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "injection water fraction" + ], + "rank": 335, + "is_a": "core field", + "slot_uri": "MIXS:0000455", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "lithology": { + "name": "lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "lithology", + "examples": [ + { + "value": "Volcanic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "lithology" + ], + "rank": 336, + "is_a": "core field", + "slot_uri": "MIXS:0000990", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "lithology_enum" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_count_qpcr_info": { + "name": "org_count_qpcr_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per gram (or ml or cm^2)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)", + "title": "organism count qPCR information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count qPCR information" + ], + "rank": 337, + "is_a": "core field", + "string_serialization": "{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles", + "slot_uri": "MIXS:0000099", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pour_point": { + "name": "pour_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)", + "title": "pour point", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pour point" + ], + "rank": 341, + "is_a": "core field", + "slot_uri": "MIXS:0000127", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prod_rate": { + "name": "prod_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oil and/or gas production rates per well (e.g. 524 m3 / day)", + "title": "production rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "production rate" + ], + "rank": 344, + "is_a": "core field", + "slot_uri": "MIXS:0000452", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prod_start_date": { + "name": "prod_start_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Date of field's first production", + "title": "production start date", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "production start date" + ], + "rank": 345, + "is_a": "core field", + "slot_uri": "MIXS:0001008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "reservoir": { + "name": "reservoir", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the reservoir (e.g. Carapebus)", + "title": "reservoir name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "reservoir name" + ], + "rank": 347, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000303", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "resins_pc": { + "name": "resins_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "resins wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "resins wt%" + ], + "rank": 348, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000134", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_collect_point": { + "name": "samp_collect_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample collection point", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection point" + ], + "rank": 349, + "is_a": "core field", + "slot_uri": "MIXS:0001015", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_collect_point_enum" + }, + "samp_loc_corr_rate": { + "name": "samp_loc_corr_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter per year" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays", + "title": "corrosion rate at sample location", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "corrosion rate at sample location" + ], + "rank": 350, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000136", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_preserv": { + "name": "samp_preserv", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliliter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml)", + "title": "preservative added to sample", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "preservative added to sample" + ], + "rank": 352, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000463", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_subtype": { + "name": "samp_subtype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample subtype", + "examples": [ + { + "value": "biofilm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample subtype" + ], + "rank": 354, + "is_a": "core field", + "slot_uri": "MIXS:0000999", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_subtype_enum" + }, + "samp_transport_cond": { + "name": "samp_transport_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "days;degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)", + "title": "sample transport conditions", + "examples": [ + { + "value": "5 days;-20 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample transport conditions" + ], + "rank": 355, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000410", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_type": { + "name": "samp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "GENEPIO:0001246" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).", + "title": "sample type", + "examples": [ + { + "value": "built environment sample [GENEPIO:0001248]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample type" + ], + "rank": 357, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000998", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "samp_well_name": { + "name": "samp_well_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the well (e.g. BXA1123) where sample was taken", + "title": "sample well name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample well name" + ], + "rank": 358, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000296", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "saturates_pc": { + "name": "saturates_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "saturates wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "saturates wt%" + ], + "rank": 359, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000131", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfate_fw": { + "name": "sulfate_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original sulfate concentration in the hydrocarbon resource", + "title": "sulfate in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate in formation water" + ], + "rank": 370, + "is_a": "core field", + "slot_uri": "MIXS:0000407", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "suspend_solids": { + "name": "suspend_solids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "suspended solid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances", + "title": "suspended solids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "suspended solids" + ], + "rank": 372, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000150", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "tan": { + "name": "tan", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)", + "title": "total acid number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total acid number" + ], + "rank": 373, + "is_a": "core field", + "slot_uri": "MIXS:0000120", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "toluene": { + "name": "toluene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of toluene in the sample", + "title": "toluene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "toluene" + ], + "rank": 375, + "is_a": "core field", + "slot_uri": "MIXS:0000154", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_iron": { + "name": "tot_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, milligram per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total iron in the sample", + "title": "total iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total iron" + ], + "rank": 376, + "is_a": "core field", + "slot_uri": "MIXS:0000105", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen", + "title": "total nitrogen concentration", + "examples": [ + { + "value": "50 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total nitrogen concentration" + ], + "rank": 377, + "is_a": "core field", + "slot_uri": "MIXS:0000102", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total phosphorus" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_sulfur": { + "name": "tot_sulfur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total sulfur in the sample", + "title": "total sulfur", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total sulfur" + ], + "rank": 379, + "is_a": "core field", + "slot_uri": "MIXS:0000419", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tvdss_of_hcr_press": { + "name": "tvdss_of_hcr_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m).", + "title": "depth (TVDSS) of hydrocarbon resource pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource pressure" + ], + "rank": 380, + "is_a": "core field", + "slot_uri": "MIXS:0000397", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tvdss_of_hcr_temp": { + "name": "tvdss_of_hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m).", + "title": "depth (TVDSS) of hydrocarbon resource temperature", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource temperature" + ], + "rank": 381, + "is_a": "core field", + "slot_uri": "MIXS:0000394", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "vfa": { + "name": "vfa", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of Volatile Fatty Acids in the sample", + "title": "volatile fatty acids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "volatile fatty acids" + ], + "rank": 382, + "is_a": "core field", + "slot_uri": "MIXS:0000152", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "vfa_fw": { + "name": "vfa_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original volatile fatty acid concentration in the hydrocarbon resource", + "title": "vfa in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "vfa in formation water" + ], + "rank": 383, + "is_a": "core field", + "slot_uri": "MIXS:0000408", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "viscosity": { + "name": "viscosity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cP at degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of oil's resistance¬†to gradual deformation by¬†shear 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This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)", + "title": "well identification number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "well identification number" + ], + "rank": 388, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000297", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "xylene": { + "name": "xylene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of xylene in the sample", + "title": "xylene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "xylene" + ], + "rank": 389, + "is_a": "core field", + "slot_uri": "MIXS:0000156", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + } + }, + "attributes": { + "add_recov_method": { + "name": "add_recov_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. 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Can also be used to propose new entries for fields with controlled vocabulary", + "title": "additional info", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "additional info" + ], + "rank": 290, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000300", + "multivalued": false, + "alias": "additional_info", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "alias": "alkalinity", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkalinity_method": { + "name": "alkalinity_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "description of method" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method used for alkalinity measurement", + "title": "alkalinity method", + "examples": [ + { + "value": "titration" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity method" + ], + "rank": 218, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000298", + "multivalued": false, + "alias": "alkalinity_method", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "alias": "ammonium", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "api": { + "name": "api", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degrees API" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)", + "title": "API gravity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "API gravity" + ], + "rank": 291, + "is_a": "core field", + "slot_uri": "MIXS:0000157", + "multivalued": false, + "alias": "api", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aromatics_pc": { + "name": "aromatics_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": 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There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "aromatics wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aromatics wt%" + ], + "rank": 292, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000133", + "multivalued": false, + "alias": "aromatics_pc", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "asphaltenes_pc": { + "name": "asphaltenes_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "asphaltenes wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "asphaltenes wt%" + ], + "rank": 293, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000135", + "multivalued": false, + "alias": "asphaltenes_pc", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "basin": { + "name": "basin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the basin (e.g. Campos)", + "title": "basin name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "basin name" + ], + "rank": 294, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000290", + "multivalued": false, + "alias": "basin", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "benzene": { + "name": "benzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of benzene in the sample", + "title": "benzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "benzene" + ], + "rank": 295, + "is_a": "core field", + "slot_uri": "MIXS:0000153", + "multivalued": false, + "alias": "benzene", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biocide": { + "name": "biocide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;name;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "List of biocides (commercial name of product and supplier) and date of administration", + "title": "biocide administration", + "examples": [ + { + "value": "ALPHA 1427;Baker Hughes;2008-01-23" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biocide administration" + ], + "rank": 297, + "is_a": "core field", + "string_serialization": "{text};{text};{timestamp}", + "slot_uri": "MIXS:0001011", + "multivalued": false, + "alias": "biocide", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "biocide_admin_method": { + "name": "biocide_admin_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;frequency;duration;duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; 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can include multiple compounds. 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"https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "alias": "diss_org_carb", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen_fluid": { + "name": "diss_oxygen_fluid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).", + "title": "dissolved oxygen in fluids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen in fluids" + ], + "rank": 306, + "is_a": "core field", + "slot_uri": "MIXS:0000438", + "multivalued": false, + "alias": "diss_oxygen_fluid", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "ethylbenzene": { + "name": "ethylbenzene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ethylbenzene in the sample", + "title": "ethylbenzene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ethylbenzene" + ], + "rank": 309, + "is_a": "core field", + "slot_uri": "MIXS:0000155", + "multivalued": false, + "alias": "ethylbenzene", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "field": { + "name": "field", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the hydrocarbon field (e.g. Albacora)", + "title": "field name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "field name" + ], + "rank": 310, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000291", + "multivalued": false, + "alias": "field", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "hc_produced": { + "name": "hc_produced", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon type produced", + "examples": [ + { + "value": "Gas" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon type produced" + ], + "rank": 313, + "is_a": "core field", + "slot_uri": "MIXS:0000989", + "multivalued": false, + "alias": "hc_produced", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hc_produced_enum" + }, + "hcr": { + "name": "hcr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource type", + "examples": [ + { + "value": "Oil Sand" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource type" + ], + "rank": 314, + "is_a": "core field", + "slot_uri": "MIXS:0000988", + "multivalued": false, + "alias": "hcr", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_enum" + }, + "hcr_fw_salinity": { + "name": "hcr_fw_salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS", + "title": "formation water salinity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "formation water salinity" + ], + "rank": 315, + "is_a": "core field", + "slot_uri": "MIXS:0000406", + "multivalued": false, + "alias": "hcr_fw_salinity", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "hcr_geol_age": { + "name": "hcr_geol_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "hydrocarbon resource geological age", + "examples": [ + { + "value": "Silurian" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource geological age" + ], + "rank": 316, + "is_a": "core field", + "slot_uri": "MIXS:0000993", + "multivalued": false, + "alias": "hcr_geol_age", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "hcr_geol_age_enum" + }, + "hcr_pressure": { + "name": "hcr_pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere, kilopascal" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original pressure of the hydrocarbon resource", + "title": "hydrocarbon resource original pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original pressure" + ], + "rank": 317, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000395", + "multivalued": false, + "alias": "hcr_pressure", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "hcr_temp": { + "name": "hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original temperature of the hydrocarbon resource", + "title": "hydrocarbon resource original temperature", + "examples": [ + { + "value": "150-295 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "hydrocarbon resource original temperature" + ], + "rank": 318, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000393", + "multivalued": false, + "alias": "hcr_temp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "iw_bt_date_well": { + "name": "iw_bt_date_well", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Injection water breakthrough date per well following a secondary and/or tertiary recovery", + "title": "injection water breakthrough date of specific well", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "injection water breakthrough date of specific well" + ], + "rank": 334, + "is_a": "core field", + "slot_uri": "MIXS:0001010", + "multivalued": false, + "alias": "iw_bt_date_well", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "iwf": { + "name": "iwf", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%)", + "title": "injection water fraction", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "injection water fraction" + ], + "rank": 335, + "is_a": "core field", + "slot_uri": "MIXS:0000455", + "multivalued": false, + "alias": "iwf", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "lithology": { + "name": "lithology", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "lithology", + "examples": [ + { + "value": "Volcanic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "lithology" + ], + "rank": 336, + "is_a": "core field", + "slot_uri": "MIXS:0000990", + "multivalued": false, + "alias": "lithology", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "lithology_enum" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "alias": "magnesium", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "alias": "nitrate", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "alias": "nitrite", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_count_qpcr_info": { + "name": "org_count_qpcr_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per gram (or ml or cm^2)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)", + "title": "organism count qPCR information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count qPCR information" + ], + "rank": 337, + "is_a": "core field", + "string_serialization": "{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles", + "slot_uri": "MIXS:0000099", + "multivalued": false, + "alias": "org_count_qpcr_info", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "alias": "potassium", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pour_point": { + "name": "pour_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)", + "title": "pour point", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pour point" + ], + "rank": 341, + "is_a": "core field", + "slot_uri": "MIXS:0000127", + "multivalued": false, + "alias": "pour_point", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "alias": "pressure", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prod_rate": { + "name": "prod_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Oil and/or gas production rates per well (e.g. 524 m3 / day)", + "title": "production rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "production rate" + ], + "rank": 344, + "is_a": "core field", + "slot_uri": "MIXS:0000452", + "multivalued": false, + "alias": "prod_rate", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prod_start_date": { + "name": "prod_start_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Date of field's first production", + "title": "production start date", + "examples": [ + { + "value": "2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "production start date" + ], + "rank": 345, + "is_a": "core field", + "slot_uri": "MIXS:0001008", + "multivalued": false, + "alias": "prod_start_date", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "reservoir": { + "name": "reservoir", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the reservoir (e.g. Carapebus)", + "title": "reservoir name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "reservoir name" + ], + "rank": 347, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000303", + "multivalued": false, + "alias": "reservoir", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "resins_pc": { + "name": "resins_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "resins wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "resins wt%" + ], + "rank": 348, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000134", + "multivalued": false, + "alias": "resins_pc", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_collect_point": { + "name": "samp_collect_point", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample collection point", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection point" + ], + "rank": 349, + "is_a": "core field", + "slot_uri": "MIXS:0001015", + "multivalued": false, + "alias": "samp_collect_point", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_collect_point_enum" + }, + "samp_loc_corr_rate": { + "name": "samp_loc_corr_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value range" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter per year" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays", + "title": "corrosion rate at sample location", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "corrosion rate at sample location" + ], + "rank": 350, + "is_a": "core field", + "string_serialization": "{float} - {float} {unit}", + "slot_uri": "MIXS:0000136", + "multivalued": false, + "alias": "samp_loc_corr_rate", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_preserv": { + "name": "samp_preserv", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliliter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml)", + "title": "preservative added to sample", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "preservative added to sample" + ], + "rank": 352, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000463", + "multivalued": false, + "alias": "samp_preserv", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_subtype": { + "name": "samp_subtype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field", + "title": "sample subtype", + "examples": [ + { + "value": "biofilm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample subtype" + ], + "rank": 354, + "is_a": "core field", + "slot_uri": "MIXS:0000999", + "multivalued": false, + "alias": "samp_subtype", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_subtype_enum" + }, + "samp_transport_cond": { + "name": "samp_transport_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "days;degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)", + "title": "sample transport conditions", + "examples": [ + { + "value": "5 days;-20 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample transport conditions" + ], + "rank": 355, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000410", + "multivalued": false, + "alias": "samp_transport_cond", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_type": { + "name": "samp_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "GENEPIO:0001246" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).", + "title": "sample type", + "examples": [ + { + "value": "built environment sample [GENEPIO:0001248]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample type" + ], + "rank": 357, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000998", + "multivalued": false, + "alias": "samp_type", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "samp_well_name": { + "name": "samp_well_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of the well (e.g. BXA1123) where sample was taken", + "title": "sample well name", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample well name" + ], + "rank": 358, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000296", + "multivalued": false, + "alias": "samp_well_name", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "saturates_pc": { + "name": "saturates_pc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)", + "title": "saturates wt%", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "saturates wt%" + ], + "rank": 359, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000131", + "multivalued": false, + "alias": "saturates_pc", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "alias": "sulfate", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfate_fw": { + "name": "sulfate_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original sulfate concentration in the hydrocarbon resource", + "title": "sulfate in formation water", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate in formation water" + ], + "rank": 370, + "is_a": "core field", + "slot_uri": "MIXS:0000407", + "multivalued": false, + "alias": "sulfate_fw", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "alias": "sulfide", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "suspend_solids": { + "name": "suspend_solids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "suspended solid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances", + "title": "suspended solids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "suspended solids" + ], + "rank": 372, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000150", + "multivalued": false, + "alias": "suspend_solids", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "tan": { + "name": "tan", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)", + "title": "total acid number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total acid number" + ], + "rank": 373, + "is_a": "core field", + "slot_uri": "MIXS:0000120", + "multivalued": false, + "alias": "tan", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "toluene": { + "name": "toluene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of toluene in the sample", + "title": "toluene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "toluene" + ], + "rank": 375, + "is_a": "core field", + "slot_uri": "MIXS:0000154", + "multivalued": false, + "alias": "toluene", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_iron": { + "name": "tot_iron", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, milligram per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total iron in the sample", + "title": "total iron", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total iron" + ], + "rank": 376, + "is_a": "core field", + "slot_uri": "MIXS:0000105", + "multivalued": false, + "alias": "tot_iron", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen", + "title": "total nitrogen concentration", + "examples": [ + { + "value": "50 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total nitrogen concentration" + ], + "rank": 377, + "is_a": "core field", + "slot_uri": "MIXS:0000102", + "multivalued": false, + "alias": "tot_nitro", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total phosphorus" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "alias": "tot_phosp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_sulfur": { + "name": "tot_sulfur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of total sulfur in the sample", + "title": "total sulfur", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total sulfur" + ], + "rank": 379, + "is_a": "core field", + "slot_uri": "MIXS:0000419", + "multivalued": false, + "alias": "tot_sulfur", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tvdss_of_hcr_press": { + "name": "tvdss_of_hcr_press", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m).", + "title": "depth (TVDSS) of hydrocarbon resource pressure", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource pressure" + ], + "rank": 380, + "is_a": "core field", + "slot_uri": "MIXS:0000397", + "multivalued": false, + "alias": "tvdss_of_hcr_press", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tvdss_of_hcr_temp": { + "name": "tvdss_of_hcr_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m).", + "title": "depth (TVDSS) of hydrocarbon resource temperature", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth (TVDSS) of hydrocarbon resource temperature" + ], + "rank": 381, + "is_a": "core field", + "slot_uri": "MIXS:0000394", + "multivalued": false, + "alias": "tvdss_of_hcr_temp", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "vfa": { + "name": "vfa", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of Volatile Fatty Acids in the sample", + "title": "volatile fatty acids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "volatile fatty acids" + ], + "rank": 382, + "is_a": "core field", + "slot_uri": "MIXS:0000152", + "multivalued": false, + "alias": "vfa", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "vfa_fw": { + "name": "vfa_fw", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement 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"preferred_unit": { + "tag": "preferred_unit", + "value": "cP at degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)", + "title": "viscosity", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "viscosity" + ], + "rank": 384, + "is_a": "core field", + "string_serialization": "{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000126", + "multivalued": false, + "alias": "viscosity", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "water_cut": { + "name": "water_cut", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percent" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Current amount of water (%) in a produced fluid stream; or the average of the combined streams", + "title": "water cut", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water cut" + ], + "rank": 386, + "is_a": "core field", + "slot_uri": "MIXS:0000454", + "multivalued": false, + "alias": "water_cut", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_prod_rate": { + "name": "water_prod_rate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Water production rates per well (e.g. 987 m3 / day)", + "title": "water production rate", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water production rate" + ], + "rank": 387, + "is_a": "core field", + "slot_uri": "MIXS:0000453", + "multivalued": false, + "alias": "water_prod_rate", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "win": { + "name": "win", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)", + "title": "well identification number", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "well identification number" + ], + "rank": 388, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000297", + "multivalued": false, + "alias": "win", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "xylene": { + "name": "xylene", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of xylene in the sample", + "title": "xylene", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "xylene" + ], + "rank": 389, + "is_a": "core field", + "slot_uri": "MIXS:0000156", + "multivalued": false, + "alias": "xylene", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "HcrFluidsSwabsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "HostAssociatedInterface": { + "name": "HostAssociatedInterface", + "description": "host_associated dh_interface", + "title": "Host Associated", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "alt", + "ances_data", + "biol_stat", + "blood_press_diast", + "blood_press_syst", + "chem_administration", + "collection_date", + "depth", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "genetic_mod", + "geo_loc_name", + "gravidity", + "horizon_meth", + "host_age", + "host_body_habitat", + "host_body_product", + "host_body_site", + "host_body_temp", + "host_color", + "host_common_name", + "host_diet", + "host_dry_mass", + "host_family_relation", + "host_genotype", + "host_growth_cond", + "host_height", + "host_last_meal", + "host_length", + "host_life_stage", + "host_phenotype", + "host_sex", + "host_shape", + "host_subject_id", + "host_subspecf_genlin", + "host_substrate", + "host_symbiont", + "host_taxid", + "host_tot_mass", + "lat_lon", + "misc_param", + "organism_count", + "oxy_stat_samp", + "perturbation", + "salinity", + "samp_capt_status", + "samp_collec_device", + "samp_collec_method", + "samp_dis_stage", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "size_frac", + "specific_ecosystem", + "temp" + ], + "slot_usage": { + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ances_data": { + "name": "ances_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)", + "title": "ancestral data", + "examples": [ + { + "value": "A/3*B" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ancestral data" + ], + "rank": 237, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000247", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "biol_stat": { + "name": "biol_stat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The level of genome modification.", + "title": "biological status", + "examples": [ + { + "value": "natural" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biological status" + ], + "rank": 239, + "is_a": "core field", + "slot_uri": "MIXS:0000858", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "biol_stat_enum" + }, + "blood_press_diast": { + "name": "blood_press_diast", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting diastolic blood pressure, measured as mm mercury", + "title": "host blood pressure diastolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host blood pressure diastolic" + ], + "rank": 299, + "is_a": "core field", + "slot_uri": "MIXS:0000258", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "blood_press_syst": { + "name": "blood_press_syst", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting systolic blood pressure, measured as mm mercury", + "title": "host blood pressure systolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host blood pressure systolic" + ], + "rank": 300, + "is_a": "core field", + "slot_uri": "MIXS:0000259", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "genetic_mod": { + "name": "genetic_mod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection", + "title": "genetic modification", + "examples": [ + { + "value": "aox1A transgenic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "genetic modification" + ], + "rank": 244, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000859", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "gravidity": { + "name": "gravidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravidity status;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used", + "title": "gravidity", + "examples": [ + { + "value": "yes;due date:2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gravidity" + ], + "rank": 312, + "is_a": "core field", + "string_serialization": "{boolean};{timestamp}", + "slot_uri": "MIXS:0000875", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "host_age": { + "name": "host_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year, day, hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees", + "title": "host age", + "examples": [ + { + "value": "10 days" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host age" + ], + "rank": 249, + "is_a": "core field", + "slot_uri": "MIXS:0000255", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_body_habitat": { + "name": "host_body_habitat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original body habitat where the sample was obtained from", + "title": "host body habitat", + "examples": [ + { + "value": "nasopharynx" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body habitat" + ], + "rank": 319, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000866", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_body_product": { + "name": "host_body_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon", + "title": "host body product", + "examples": [ + { + "value": "Portion of mucus [fma66938]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body product" + ], + "rank": 320, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000888", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_body_site": { + "name": "host_body_site", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON", + "title": "host body site", + "examples": [ + { + "value": "gill [UBERON:0002535]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body site" + ], + "rank": 321, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000867", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_body_temp": { + "name": "host_body_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Core body temperature of the host when sample was collected", + "title": "host body temperature", + "examples": [ + { + "value": "15 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body temperature" + ], + "rank": 322, + "is_a": "core field", + "slot_uri": "MIXS:0000274", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_color": { + "name": "host_color", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "color" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The color of host", + "title": "host color", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host color" + ], + "rank": 323, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000260", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_common_name": { + "name": "host_common_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Common name of the host.", + "title": "host common name", + "examples": [ + { + "value": "human" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host common name" + ], + "rank": 250, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000248", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_diet": { + "name": "host_diet", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diet type" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types", + "title": "host diet", + "examples": [ + { + "value": "herbivore" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host diet" + ], + "rank": 324, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000869", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_dry_mass": { + "name": "host_dry_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of dry mass", + "title": "host dry mass", + "examples": [ + { + "value": "500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host dry mass" + ], + "rank": 251, + "is_a": "core field", + "slot_uri": "MIXS:0000257", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_family_relation": { + "name": "host_family_relation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "relationship type;arbitrary identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Familial relationships to other hosts in the same study; can include multiple relationships", + "title": "host family relationship", + "examples": [ + { + "value": "offspring;Mussel25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host family relationship" + ], + "rank": 325, + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0000872", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_genotype": { + "name": "host_genotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "genotype" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Observed genotype", + "title": "host genotype", + "examples": [ + { + "value": "C57BL/6" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host genotype" + ], + "rank": 252, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000365", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_growth_cond": { + "name": "host_growth_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Literature reference giving growth conditions of the host", + "title": "host growth conditions", + "examples": [ + { + "value": "https://academic.oup.com/icesjms/article/68/2/349/617247" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host growth conditions" + ], + "rank": 326, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000871", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_height": { + "name": "host_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The height of subject", + "title": "host height", + "examples": [ + { + "value": "0.1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host height" + ], + "rank": 253, + "is_a": "core field", + "slot_uri": "MIXS:0000264", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_last_meal": { + "name": "host_last_meal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "content;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Content of last meal and time since feeding; can include multiple values", + "title": "host last meal", + "examples": [ + { + "value": "corn feed;P2H" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host last meal" + ], + "rank": 327, + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000870", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_length": { + "name": "host_length", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length of subject", + "title": "host length", + "examples": [ + { + "value": "1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host length" + ], + "rank": 254, + "is_a": "core field", + "slot_uri": "MIXS:0000256", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_life_stage": { + "name": "host_life_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "stage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of life stage of host", + "title": "host life stage", + "examples": [ + { + "value": "adult" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host life stage" + ], + "rank": 255, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000251", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_phenotype": { + "name": "host_phenotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PATO or HP" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP", + "title": "host phenotype", + "examples": [ + { + "value": "elongated [PATO:0001154]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host phenotype" + ], + "rank": 256, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000874", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_sex": { + "name": "host_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Gender or physical sex of the host.", + "title": "host sex", + "examples": [ + { + "value": "non-binary" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host sex" + ], + "rank": 328, + "is_a": "core field", + "slot_uri": "MIXS:0000811", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "host_sex_enum" + }, + "host_shape": { + "name": "host_shape", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "shape" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Morphological shape of host", + "title": "host shape", + "examples": [ + { + "value": "round" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host shape" + ], + "rank": 329, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000261", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_subject_id": { + "name": "host_subject_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "unique identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier by which each subject can be referred to, de-identified.", + "title": "host subject id", + "examples": [ + { + "value": "MPI123" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subject id" + ], + "rank": 330, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000861", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_subspecf_genlin": { + "name": "host_subspecf_genlin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.", + "title": "host subspecific genetic lineage", + "examples": [ + { + "value": "serovar:Newport, variety:glabrum, cultivar: Red Delicious" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subspecific genetic lineage" + ], + "rank": 257, + "is_a": "core field", + "string_serialization": "{rank name}:{text}", + "slot_uri": "MIXS:0001318", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_substrate": { + "name": "host_substrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "substrate name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The growth substrate of the host.", + "title": "host substrate", + "examples": [ + { + "value": "rock" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host substrate" + ], + "rank": 331, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000252", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_symbiont": { + "name": "host_symbiont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "species name or common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.", + "title": "observed host symbionts", + "examples": [ + { + "value": "flukeworms" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed host symbionts" + ], + "rank": 258, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001298", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_taxid": { + "name": "host_taxid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCBI taxon identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "NCBI taxon id of the host, e.g. 9606", + "title": "host taxid", + "comments": [ + "Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host taxid" + ], + "rank": 259, + "is_a": "core field", + "slot_uri": "MIXS:0000250", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_tot_mass": { + "name": "host_tot_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total mass of the host at collection, the unit depends on host", + "title": "host total mass", + "examples": [ + { + "value": "2500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host total mass" + ], + "rank": 260, + "is_a": "core field", + "slot_uri": "MIXS:0000263", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_capt_status": { + "name": "samp_capt_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reason for the sample", + "title": "sample capture status", + "examples": [ + { + "value": "farm sample" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample capture status" + ], + "rank": 282, + "is_a": "core field", + "slot_uri": "MIXS:0000860", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_capt_status_enum" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_dis_stage": { + "name": "samp_dis_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.", + "title": "sample disease stage", + "examples": [ + { + "value": "infection" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample disease stage" + ], + "rank": 283, + "is_a": "core field", + "slot_uri": "MIXS:0000249", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_dis_stage_enum" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + } + }, + "attributes": { + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "alias": "alt", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ances_data": { + "name": "ances_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)", + "title": "ancestral data", + "examples": [ + { + "value": "A/3*B" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ancestral data" + ], + "rank": 237, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000247", + "multivalued": false, + "alias": "ances_data", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "biol_stat": { + "name": "biol_stat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The level of genome modification.", + "title": "biological status", + "examples": [ + { + "value": "natural" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biological status" + ], + "rank": 239, + "is_a": "core field", + "slot_uri": "MIXS:0000858", + "multivalued": false, + "alias": "biol_stat", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "biol_stat_enum" + }, + "blood_press_diast": { + "name": "blood_press_diast", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting diastolic blood pressure, measured as mm mercury", + "title": "host blood pressure diastolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host blood pressure diastolic" + ], + "rank": 299, + "is_a": "core field", + "slot_uri": "MIXS:0000258", + "multivalued": false, + "alias": "blood_press_diast", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "blood_press_syst": { + "name": "blood_press_syst", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter mercury" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Resting systolic blood pressure, measured as mm mercury", + "title": "host blood pressure systolic", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host blood pressure systolic" + ], + "rank": 300, + "is_a": "core field", + "slot_uri": "MIXS:0000259", + "multivalued": false, + "alias": "blood_press_syst", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "genetic_mod": { + "name": "genetic_mod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection", + "title": "genetic modification", + "examples": [ + { + "value": "aox1A transgenic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "genetic modification" + ], + "rank": 244, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000859", + "multivalued": false, + "alias": "genetic_mod", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "gravidity": { + "name": "gravidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravidity status;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used", + "title": "gravidity", + "examples": [ + { + "value": "yes;due date:2018-05-11" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gravidity" + ], + "rank": 312, + "is_a": "core field", + "string_serialization": "{boolean};{timestamp}", + "slot_uri": "MIXS:0000875", + "multivalued": false, + "alias": "gravidity", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "host_age": { + "name": "host_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year, day, hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees", + "title": "host age", + "examples": [ + { + "value": "10 days" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host age" + ], + "rank": 249, + "is_a": "core field", + "slot_uri": "MIXS:0000255", + "multivalued": false, + "alias": "host_age", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_body_habitat": { + "name": "host_body_habitat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Original body habitat where the sample was obtained from", + "title": "host body habitat", + "examples": [ + { + "value": "nasopharynx" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body habitat" + ], + "rank": 319, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000866", + "multivalued": false, + "alias": "host_body_habitat", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_body_product": { + "name": "host_body_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon", + "title": "host body product", + "examples": [ + { + "value": "Portion of mucus [fma66938]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body product" + ], + "rank": 320, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000888", + "multivalued": false, + "alias": "host_body_product", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_body_site": { + "name": "host_body_site", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "FMA or UBERON" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON", + "title": "host body site", + "examples": [ + { + "value": "gill [UBERON:0002535]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body site" + ], + "rank": 321, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000867", + "multivalued": false, + "alias": "host_body_site", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_body_temp": { + "name": "host_body_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Core body temperature of the host when sample was collected", + "title": "host body temperature", + "examples": [ + { + "value": "15 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host body temperature" + ], + "rank": 322, + "is_a": "core field", + "slot_uri": "MIXS:0000274", + "multivalued": false, + "alias": "host_body_temp", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_color": { + "name": "host_color", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "color" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The color of host", + "title": "host color", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host color" + ], + "rank": 323, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000260", + "multivalued": false, + "alias": "host_color", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_common_name": { + "name": "host_common_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Common name of the host.", + "title": "host common name", + "examples": [ + { + "value": "human" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host common name" + ], + "rank": 250, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000248", + "multivalued": false, + "alias": "host_common_name", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_diet": { + "name": "host_diet", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diet type" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types", + "title": "host diet", + "examples": [ + { + "value": "herbivore" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host diet" + ], + "rank": 324, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000869", + "multivalued": false, + "alias": "host_diet", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_dry_mass": { + "name": "host_dry_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of dry mass", + "title": "host dry mass", + "examples": [ + { + "value": "500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host dry mass" + ], + "rank": 251, + "is_a": "core field", + "slot_uri": "MIXS:0000257", + "multivalued": false, + "alias": "host_dry_mass", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_family_relation": { + "name": "host_family_relation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "relationship type;arbitrary identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Familial relationships to other hosts in the same study; can include multiple relationships", + "title": "host family relationship", + "examples": [ + { + "value": "offspring;Mussel25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host family relationship" + ], + "rank": 325, + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0000872", + "multivalued": false, + "alias": "host_family_relation", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_genotype": { + "name": "host_genotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "genotype" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Observed genotype", + "title": "host genotype", + "examples": [ + { + "value": "C57BL/6" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host genotype" + ], + "rank": 252, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000365", + "multivalued": false, + "alias": "host_genotype", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_growth_cond": { + "name": "host_growth_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Literature reference giving growth conditions of the host", + "title": "host growth conditions", + "examples": [ + { + "value": "https://academic.oup.com/icesjms/article/68/2/349/617247" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host growth conditions" + ], + "rank": 326, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000871", + "multivalued": false, + "alias": "host_growth_cond", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_height": { + "name": "host_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The height of subject", + "title": "host height", + "examples": [ + { + "value": "0.1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host height" + ], + "rank": 253, + "is_a": "core field", + "slot_uri": "MIXS:0000264", + "multivalued": false, + "alias": "host_height", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_last_meal": { + "name": "host_last_meal", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "content;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Content of last meal and time since feeding; can include multiple values", + "title": "host last meal", + "examples": [ + { + "value": "corn feed;P2H" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host last meal" + ], + "rank": 327, + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000870", + "multivalued": false, + "alias": "host_last_meal", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_length": { + "name": "host_length", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length of subject", + "title": "host length", + "examples": [ + { + "value": "1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host length" + ], + "rank": 254, + "is_a": "core field", + "slot_uri": "MIXS:0000256", + "multivalued": false, + "alias": "host_length", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_life_stage": { + "name": "host_life_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "stage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of life stage of host", + "title": "host life stage", + "examples": [ + { + "value": "adult" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host life stage" + ], + "rank": 255, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000251", + "multivalued": false, + "alias": "host_life_stage", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_phenotype": { + "name": "host_phenotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PATO or HP" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP", + "title": "host phenotype", + "examples": [ + { + "value": "elongated [PATO:0001154]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host phenotype" + ], + "rank": 256, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000874", + "multivalued": false, + "alias": "host_phenotype", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_sex": { + "name": "host_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Gender or physical sex of the host.", + "title": "host sex", + "examples": [ + { + "value": "non-binary" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host sex" + ], + "rank": 328, + "is_a": "core field", + "slot_uri": "MIXS:0000811", + "multivalued": false, + "alias": "host_sex", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "host_sex_enum" + }, + "host_shape": { + "name": "host_shape", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "shape" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Morphological shape of host", + "title": "host shape", + "examples": [ + { + "value": "round" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host shape" + ], + "rank": 329, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000261", + "multivalued": false, + "alias": "host_shape", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_subject_id": { + "name": "host_subject_id", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "unique identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A unique identifier by which each subject can be referred to, de-identified.", + "title": "host subject id", + "examples": [ + { + "value": "MPI123" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subject id" + ], + "rank": 330, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000861", + "multivalued": false, + "alias": "host_subject_id", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_subspecf_genlin": { + "name": "host_subspecf_genlin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.", + "title": "host subspecific genetic lineage", + "examples": [ + { + "value": "serovar:Newport, variety:glabrum, cultivar: Red Delicious" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subspecific genetic lineage" + ], + "rank": 257, + "is_a": "core field", + "string_serialization": "{rank name}:{text}", + "slot_uri": "MIXS:0001318", + "multivalued": false, + "alias": "host_subspecf_genlin", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_substrate": { + "name": "host_substrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "substrate name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The growth substrate of the host.", + "title": "host substrate", + "examples": [ + { + "value": "rock" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host substrate" + ], + "rank": 331, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000252", + "multivalued": false, + "alias": "host_substrate", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_symbiont": { + "name": "host_symbiont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "species name or common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.", + "title": "observed host symbionts", + "examples": [ + { + "value": "flukeworms" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed host symbionts" + ], + "rank": 258, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001298", + "multivalued": false, + "alias": "host_symbiont", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_taxid": { + "name": "host_taxid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCBI taxon identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "NCBI taxon id of the host, e.g. 9606", + "title": "host taxid", + "comments": [ + "Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host taxid" + ], + "rank": 259, + "is_a": "core field", + "slot_uri": "MIXS:0000250", + "multivalued": false, + "alias": "host_taxid", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_tot_mass": { + "name": "host_tot_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total mass of the host at collection, the unit depends on host", + "title": "host total mass", + "examples": [ + { + "value": "2500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host total mass" + ], + "rank": 260, + "is_a": "core field", + "slot_uri": "MIXS:0000263", + "multivalued": false, + "alias": "host_tot_mass", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_capt_status": { + "name": "samp_capt_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reason for the sample", + "title": "sample capture status", + "examples": [ + { + "value": "farm sample" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample capture status" + ], + "rank": 282, + "is_a": "core field", + "slot_uri": "MIXS:0000860", + "multivalued": false, + "alias": "samp_capt_status", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_capt_status_enum" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_dis_stage": { + "name": "samp_dis_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.", + "title": "sample disease stage", + "examples": [ + { + "value": "infection" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample disease stage" + ], + "rank": 283, + "is_a": "core field", + "slot_uri": "MIXS:0000249", + "multivalued": false, + "alias": "samp_dis_stage", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_dis_stage_enum" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "HostAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "JgiMgInterface": { + "name": "JgiMgInterface", + "description": "jgi_mg dh_interface", + "title": "JGI MG", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "dna_absorb1", + "dna_absorb2", + "dna_concentration", + "dna_cont_type", + "dna_cont_well", + "dna_container_id", + "dna_dnase", + "dna_isolate_meth", + "dna_project_contact", + "dna_samp_id", + "dna_sample_format", + "dna_sample_name", + "dna_seq_project", + "dna_seq_project_name", + "dna_seq_project_pi", + "dna_volume", + "proposal_dna", + "dna_absorb1", + "dna_absorb2", + "dna_concentration", + "dna_cont_type", + "dna_cont_well", + "dna_container_id", + "dna_dnase", + "dna_isolate_meth", + "dna_project_contact", + "dna_samp_id", + "dna_sample_format", + "dna_sample_name", + "dna_seq_project", + "dna_seq_project_name", + "dna_seq_project_pi", + "dna_volume", + "proposal_dna" + ], + "slot_usage": { + "dna_absorb1": { + "name": "dna_absorb1", + "description": "260/280 measurement of DNA sample purity", + "title": "DNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "recommended": true + }, + "dna_absorb2": { + "name": "dna_absorb2", + "description": "260/230 measurement of DNA sample purity", + "title": "DNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "recommended": true + }, + "dna_concentration": { + "name": "dna_concentration", + "title": "DNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "dna_cont_type": { + "name": "dna_cont_type", + "description": "Tube or plate (96-well)", + "title": "DNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "JgiContTypeEnum", + "required": true, + "recommended": true + }, + "dna_cont_well": { + "name": "dna_cont_well", + "title": "DNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "dna_container_id": { + "name": "dna_container_id", + "title": "DNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^.{1,20}$" + }, + "dna_dnase": { + "name": "dna_dnase", + "title": "DNase treatment DNA", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "YesNoEnum", + "required": true, + "recommended": true + }, + "dna_isolate_meth": { + "name": "dna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "DNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_project_contact": { + "name": "dna_project_contact", + "title": "DNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_samp_id": { + "name": "dna_samp_id", + "title": "DNA sample ID", + "todos": [ + "Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled?" + ], + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_sample_format": { + "name": "dna_sample_format", + "description": "Solution in which the DNA sample has been suspended", + "title": "DNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 12, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "dna_sample_format_enum", + "required": true, + "recommended": true + }, + "dna_sample_name": { + "name": "dna_sample_name", + "description": "Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "DNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project": { + "name": "dna_seq_project", + "title": "DNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project_name": { + "name": "dna_seq_project_name", + "title": "DNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metagenomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project_pi": { + "name": "dna_seq_project_pi", + "title": "DNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_volume": { + "name": "dna_volume", + "title": "DNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "proposal_dna": { + "name": "proposal_dna", + "title": "DNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "range": "OxyStatSampEnum" + } + }, + "attributes": { + "dna_absorb1": { + "name": "dna_absorb1", + "description": "260/280 measurement of DNA sample purity", + "title": "DNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "string_serialization": "{float}", + "alias": "dna_absorb1", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "recommended": true + }, + "dna_absorb2": { + "name": "dna_absorb2", + "description": "260/230 measurement of DNA sample purity", + "title": "DNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "string_serialization": "{float}", + "alias": "dna_absorb2", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "recommended": true + }, + "dna_concentration": { + "name": "dna_concentration", + "title": "DNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{float}", + "alias": "dna_concentration", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "dna_cont_type": { + "name": "dna_cont_type", + "description": "Tube or plate (96-well)", + "title": "DNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "alias": "dna_cont_type", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "JgiContTypeEnum", + "required": true, + "recommended": true + }, + "dna_cont_well": { + "name": "dna_cont_well", + "title": "DNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "multivalued": false, + "alias": "dna_cont_well", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "dna_container_id": { + "name": "dna_container_id", + "title": "DNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "multivalued": false, + "alias": "dna_container_id", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^.{1,20}$" + }, + "dna_dnase": { + "name": "dna_dnase", + "title": "DNase treatment DNA", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "alias": "dna_dnase", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "YesNoEnum", + "required": true, + "recommended": true + }, + "dna_isolate_meth": { + "name": "dna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "DNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_isolate_meth", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_project_contact": { + "name": "dna_project_contact", + "title": "DNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_project_contact", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_samp_id": { + "name": "dna_samp_id", + "title": "DNA sample ID", + "todos": [ + "Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled?" + ], + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_samp_id", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_sample_format": { + "name": "dna_sample_format", + "description": "Solution in which the DNA sample has been suspended", + "title": "DNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 12, + "alias": "dna_sample_format", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "dna_sample_format_enum", + "required": true, + "recommended": true + }, + "dna_sample_name": { + "name": "dna_sample_name", + "description": "Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "DNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_sample_name", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project": { + "name": "dna_seq_project", + "title": "DNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_seq_project", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project_name": { + "name": "dna_seq_project_name", + "title": "DNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metagenomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_seq_project_name", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_seq_project_pi": { + "name": "dna_seq_project_pi", + "title": "DNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "string_serialization": "{text}", + "multivalued": false, + "alias": "dna_seq_project_pi", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "dna_volume": { + "name": "dna_volume", + "title": "DNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{float}", + "alias": "dna_volume", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "proposal_dna": { + "name": "proposal_dna", + "title": "DNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "string_serialization": "{text}", + "multivalued": false, + "alias": "proposal_dna", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "JgiMgInterface" + ], + "slot_group": "jgi_metagenomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "JgiMgInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + }, + "rules": [ + { + "preconditions": { + "slot_conditions": { + "dna_cont_well": { + "name": "dna_cont_well", + "pattern": ".+" + } + } + }, + "postconditions": { + "slot_conditions": { + "dna_cont_type": { + "name": "dna_cont_type", + "equals_string": "plate" + } + } + }, + "description": "DNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position.", + "title": "dna_well_requires_plate" + }, + { + "preconditions": { + "slot_conditions": { + "dna_cont_type": { + "name": "dna_cont_type", + "equals_string": "plate" + } + } + }, + "postconditions": { + "slot_conditions": { + "dna_cont_well": { + "name": "dna_cont_well", + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + } + } + }, + "description": "DNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime", + "title": "dna_plate_requires_well" + } + ] + }, + "JgiMtInterface": { + "name": "JgiMtInterface", + "description": "jgi_mt dh_interface", + "title": "JGI MT", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "dnase_rna", + "proposal_rna", + "rna_absorb1", + "rna_absorb2", + "rna_concentration", + "rna_cont_type", + "rna_cont_well", + "rna_container_id", + "rna_isolate_meth", + "rna_project_contact", + "rna_samp_id", + "rna_sample_format", + "rna_sample_name", + "rna_seq_project", + "rna_seq_project_name", + "rna_seq_project_pi", + "rna_volume", + "dnase_rna", + "proposal_rna", + "rna_absorb1", + "rna_absorb2", + "rna_concentration", + "rna_cont_type", + "rna_cont_well", + "rna_container_id", + "rna_isolate_meth", + "rna_project_contact", + "rna_samp_id", + "rna_sample_format", + "rna_sample_name", + "rna_seq_project", + "rna_seq_project_name", + "rna_seq_project_pi", + "rna_volume" + ], + "slot_usage": { + "dnase_rna": { + "name": "dnase_rna", + "title": "DNase treated", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "YesNoEnum", + "required": true, + "recommended": true + }, + "proposal_rna": { + "name": "proposal_rna", + "title": "RNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_absorb1": { + "name": "rna_absorb1", + "description": "260/280 measurement of RNA sample purity", + "title": "RNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "recommended": true + }, + "rna_absorb2": { + "name": "rna_absorb2", + "description": "260/230 measurement of RNA sample purity", + "title": "RNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "recommended": true + }, + "rna_concentration": { + "name": "rna_concentration", + "title": "RNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 1000 + }, + "rna_cont_type": { + "name": "rna_cont_type", + "description": "Tube or plate (96-well)", + "title": "RNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "JgiContTypeEnum", + "required": true, + "recommended": true + }, + "rna_cont_well": { + "name": "rna_cont_well", + "title": "RNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "rna_container_id": { + "name": "rna_container_id", + "title": "RNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^.{1,20}$" + }, + "rna_isolate_meth": { + "name": "rna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "RNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_project_contact": { + "name": "rna_project_contact", + "title": "RNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_samp_id": { + "name": "rna_samp_id", + "title": "RNA sample ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_sample_format": { + "name": "rna_sample_format", + "description": "Solution in which the RNA sample has been suspended", + "title": "RNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 12, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "rna_sample_format_enum", + "required": true, + "recommended": true + }, + "rna_sample_name": { + "name": "rna_sample_name", + "description": "Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "RNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "rna_seq_project": { + "name": "rna_seq_project", + "title": "RNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_seq_project_name": { + "name": "rna_seq_project_name", + "title": "RNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metatranscriptomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_seq_project_pi": { + "name": "rna_seq_project_pi", + "title": "RNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_volume": { + "name": "rna_volume", + "title": "RNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{float}", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "range": "OxyStatSampEnum" + } + }, + "attributes": { + "dnase_rna": { + "name": "dnase_rna", + "title": "DNase treated", + "comments": [ + "Note DNase treatment is required for all RNA samples." + ], + "examples": [ + { + "value": "no" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "alias": "dnase_rna", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "YesNoEnum", + "required": true, + "recommended": true + }, + "proposal_rna": { + "name": "proposal_rna", + "title": "RNA proposal ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "504000" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "string_serialization": "{text}", + "multivalued": false, + "alias": "proposal_rna", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_absorb1": { + "name": "rna_absorb1", + "description": "260/280 measurement of RNA sample purity", + "title": "RNA absorbance 260/280", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "string_serialization": "{float}", + "alias": "rna_absorb1", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "recommended": true + }, + "rna_absorb2": { + "name": "rna_absorb2", + "description": "260/230 measurement of RNA sample purity", + "title": "RNA absorbance 260/230", + "comments": [ + "Recommended value is between 1 and 3." + ], + "examples": [ + { + "value": "2.02" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "string_serialization": "{float}", + "alias": "rna_absorb2", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "recommended": true + }, + "rna_concentration": { + "name": "rna_concentration", + "title": "RNA concentration in ng/ul", + "comments": [ + "Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{float}", + "alias": "rna_concentration", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 1000 + }, + "rna_cont_type": { + "name": "rna_cont_type", + "description": "Tube or plate (96-well)", + "title": "RNA container type", + "examples": [ + { + "value": "plate" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "alias": "rna_cont_type", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "JgiContTypeEnum", + "required": true, + "recommended": true + }, + "rna_cont_well": { + "name": "rna_cont_well", + "title": "RNA plate position", + "comments": [ + "Required when 'plate' is selected for container type.", + "Leave blank if the sample will be shipped in a tube.", + "JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.", + "For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8)." + ], + "examples": [ + { + "value": "B2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 11, + "string_serialization": "{96 well plate pos}", + "multivalued": false, + "alias": "rna_cont_well", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "recommended": true, + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + }, + "rna_container_id": { + "name": "rna_container_id", + "title": "RNA container label", + "comments": [ + "Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label." + ], + "examples": [ + { + "value": "Pond_MT_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "string_serialization": "{text < 20 characters}", + "multivalued": false, + "alias": "rna_container_id", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true, + "pattern": "^.{1,20}$" + }, + "rna_isolate_meth": { + "name": "rna_isolate_meth", + "description": "Describe the method/protocol/kit used to extract DNA/RNA.", + "title": "RNA isolation method", + "examples": [ + { + "value": "phenol/chloroform extraction" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_isolate_meth", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_project_contact": { + "name": "rna_project_contact", + "title": "RNA seq project contact", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "John Jones" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_project_contact", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_samp_id": { + "name": "rna_samp_id", + "title": "RNA sample ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "187654" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_samp_id", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_sample_format": { + "name": "rna_sample_format", + "description": "Solution in which the RNA sample has been suspended", + "title": "RNA sample format", + "examples": [ + { + "value": "Water" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 12, + "alias": "rna_sample_format", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "rna_sample_format_enum", + "required": true, + "recommended": true + }, + "rna_sample_name": { + "name": "rna_sample_name", + "description": "Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.", + "title": "RNA sample name", + "examples": [ + { + "value": "JGI_pond_041618" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_sample_name", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true, + "minimum_value": 0, + "maximum_value": 2000 + }, + "rna_seq_project": { + "name": "rna_seq_project", + "title": "RNA seq project ID", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "1191234" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_seq_project", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_seq_project_name": { + "name": "rna_seq_project_name", + "title": "RNA seq project name", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "JGI Pond metatranscriptomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_seq_project_name", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_seq_project_pi": { + "name": "rna_seq_project_pi", + "title": "RNA seq project PI", + "comments": [ + "Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled." + ], + "examples": [ + { + "value": "Jane Johnson" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "string_serialization": "{text}", + "multivalued": false, + "alias": "rna_seq_project_pi", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "string", + "required": true, + "recommended": true + }, + "rna_volume": { + "name": "rna_volume", + "title": "RNA volume in ul", + "comments": [ + "Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only." + ], + "examples": [ + { + "value": "25" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "string_serialization": "{float}", + "alias": "rna_volume", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "JgiMtInterface" + ], + "slot_group": "jgi_metatranscriptomics_section", + "range": "float", + "required": true, + "recommended": true, + "minimum_value": 25, + "maximum_value": 1000 + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "JgiMtInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + }, + "rules": [ + { + "preconditions": { + "slot_conditions": { + "rna_cont_well": { + "name": "rna_cont_well", + "pattern": ".+" + } + } + }, + "postconditions": { + "slot_conditions": { + "rna_cont_type": { + "name": "rna_cont_type", + "equals_string": "plate" + } + } + }, + "description": "RNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position.", + "title": "rna_well_requires_plate" + }, + { + "preconditions": { + "slot_conditions": { + "rna_cont_type": { + "name": "rna_cont_type", + "equals_string": "plate" + } + } + }, + "postconditions": { + "slot_conditions": { + "rna_cont_well": { + "name": "rna_cont_well", + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + } + } + }, + "description": "RNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime", + "title": "rna_plate_requires_well" + } + ] + }, + "MiscEnvsInterface": { + "name": "MiscEnvsInterface", + "description": "misc_envs dh_interface", + "title": "Misc Envs", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin" + ], + "slots": [ + "alkalinity", + "alt", + "ammonium", + "biomass", + "bromide", + "calcium", + "chem_administration", + "chloride", + "chlorophyll", + "collection_date", + "density", + "depth", + "diether_lipids", + "diss_carb_dioxide", + "diss_hydrogen", + "diss_inorg_carb", + "diss_org_nitro", + "diss_oxygen", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "geo_loc_name", + "horizon_meth", + "lat_lon", + "misc_param", + "nitrate", + "nitrite", + "nitro", + "org_carb", + "org_matter", + "org_nitro", + "organism_count", + "oxy_stat_samp", + "perturbation", + "ph", + "ph_meth", + "phosphate", + "phosplipid_fatt_acid", + "potassium", + "pressure", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "silicate", + "size_frac", + "sodium", + "specific_ecosystem", + "sulfate", + "sulfide", + "temp", + "water_current" + ], + "slot_usage": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? 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total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitro": { + "name": "nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrogen (total)", + "title": "nitrogen", + "examples": [ + { + "value": "4.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrogen" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0000504", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_carb": { + "name": "org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic carbon", + "title": "organic carbon", + "examples": [ + { + "value": "1.5 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic carbon" + ], + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000508", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_matter": { + "name": "org_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic matter" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic nitrogen" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phospholipid fatty acid" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_current": { + "name": "water_current", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per second, knots" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of magnitude and direction of flow within a fluid", + "title": "water current", + "examples": [ + { + "value": "10 cubic meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water current" + ], + "rank": 236, + "is_a": "core field", + "slot_uri": "MIXS:0000203", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "MiscEnvsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + } + }, + "attributes": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "alias": "alkalinity", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alt": { + "name": "alt", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air", + "title": "altitude", + "examples": [ + { + "value": "100 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "altitude" + ], + "rank": 26, + "is_a": "environment field", + "slot_uri": "MIXS:0000094", + "multivalued": false, + "alias": "alt", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HostAssociatedInterface", + "MiscEnvsInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "alias": "ammonium", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "alias": "biomass", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "bromide": { + "name": "bromide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bromide", + "title": "bromide", + "examples": [ + { + "value": "0.05 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bromide" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0000176", + "multivalued": false, + "alias": "bromide", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "alias": "calcium", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "alias": "chloride", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chlorophyll": { + "name": "chlorophyll", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter, microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chlorophyll", + "title": "chlorophyll", + "examples": [ + { + "value": "5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chlorophyll" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000177", + "multivalued": false, + "alias": "chlorophyll", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "density" + ], + "rank": 12, + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "alias": "density", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "diether_lipids": { + "name": "diether_lipids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diether lipid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of diether lipids; can include multiple types of diether lipids", + "title": "diether lipids", + "examples": [ + { + "value": "0.2 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "diether lipids" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000178", + "multivalued": false, + "alias": "diether_lipids", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "alias": "diss_carb_dioxide", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved hydrogen" + ], + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "alias": "diss_hydrogen", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "alias": "diss_inorg_carb", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "alias": "diss_org_nitro", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "alias": "diss_oxygen", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "alias": "nitrate", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "alias": "nitrite", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitro": { + "name": "nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrogen (total)", + "title": "nitrogen", + "examples": [ + { + "value": "4.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrogen" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0000504", + "multivalued": false, + "alias": "nitro", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_carb": { + "name": "org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic carbon", + "title": "organic carbon", + "examples": [ + { + "value": "1.5 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic carbon" + ], + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000508", + "multivalued": false, + "alias": "org_carb", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_matter": { + "name": "org_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic matter" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "alias": "org_matter", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic nitrogen" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "alias": "org_nitro", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "alias": "phosphate", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phospholipid fatty acid" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "alias": "phosplipid_fatt_acid", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "alias": "potassium", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "alias": "pressure", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "alias": "silicate", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "alias": "sulfate", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "alias": "sulfide", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_current": { + "name": "water_current", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per second, knots" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of magnitude and direction of flow within a fluid", + "title": "water current", + "examples": [ + { + "value": "10 cubic meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water current" + ], + "rank": 236, + "is_a": "core field", + "slot_uri": "MIXS:0000203", + "multivalued": false, + "alias": "water_current", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "MiscEnvsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "MiscEnvsInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "PlantAssociatedInterface": { + "name": "PlantAssociatedInterface", + "description": "plant_associated dh_interface", + "title": "Plant Associated", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "air_temp_regm", + "ances_data", + "antibiotic_regm", + "biol_stat", + "biotic_regm", + "chem_administration", + "chem_mutagen", + "climate_environment", + "collection_date", + "cult_root_med", + "depth", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "fertilizer_regm", + "fungicide_regm", + "gaseous_environment", + "genetic_mod", + "geo_loc_name", + "gravity", + "growth_facil", + "growth_habit", + "growth_hormone_regm", + "herbicide_regm", + "horizon_meth", + "host_age", + "host_common_name", + "host_dry_mass", + "host_genotype", + "host_height", + "host_length", + "host_life_stage", + "host_phenotype", + "host_subspecf_genlin", + "host_symbiont", + "host_taxid", + "host_tot_mass", + "host_wet_mass", + "humidity_regm", + "lat_lon", + "light_regm", + "mechanical_damage", + "mineral_nutr_regm", + "misc_param", + "non_min_nutr_regm", + "organism_count", + "oxy_stat_samp", + "perturbation", + "pesticide_regm", + "ph_regm", + "plant_growth_med", + "plant_product", + "plant_sex", + "plant_struc", + "radiation_regm", + "rainfall_regm", + "root_cond", + "root_med_carbon", + "root_med_macronutr", + "root_med_micronutr", + "root_med_ph", + "root_med_regl", + "root_med_solid", + "root_med_suppl", + "salinity", + "salt_regm", + "samp_capt_status", + "samp_collec_device", + "samp_collec_method", + "samp_dis_stage", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "season_environment", + "size_frac", + "specific_ecosystem", + "standing_water_regm", + "temp", + "tiss_cult_growth_med", + "water_temp_regm", + "watering_regm" + ], + "slot_usage": { + "air_temp_regm": { + "name": "air_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "temperature value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens", + "title": "air temperature regimen", + "examples": [ + { + "value": "25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air temperature regimen" + ], + "rank": 16, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000551", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "ances_data": { + "name": "ances_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)", + "title": "ancestral data", + "examples": [ + { + "value": "A/3*B" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ancestral data" + ], + "rank": 237, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000247", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "antibiotic_regm": { + "name": "antibiotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "antibiotic name;antibiotic amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens", + "title": "antibiotic regimen", + "examples": [ + { + "value": "penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "antibiotic regimen" + ], + "rank": 238, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000553", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "biol_stat": { + "name": "biol_stat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The level of genome modification.", + "title": "biological status", + "examples": [ + { + "value": "natural" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biological status" + ], + "rank": 239, + "is_a": "core field", + "slot_uri": "MIXS:0000858", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "biol_stat_enum" + }, + "biotic_regm": { + "name": "biotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.", + "title": "biotic regimen", + "examples": [ + { + "value": "sample inoculated with Rhizobium spp. Culture" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biotic regimen" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001038", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chem_mutagen": { + "name": "chem_mutagen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mutagen name;mutagen amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens", + "title": "chemical mutagen", + "examples": [ + { + "value": "nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical mutagen" + ], + "rank": 240, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000555", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "climate_environment": { + "name": "climate_environment", + "description": "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates", + "title": "climate environment", + "todos": [ + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example.", + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001040", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "cult_root_med": { + "name": "cult_root_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name, PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors.", + "title": "culture rooting medium", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "culture rooting medium" + ], + "rank": 241, + "is_a": "core field", + "string_serialization": "{text}|{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001041", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fertilizer_regm": { + "name": "fertilizer_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fertilizer name;fertilizer amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens", + "title": "fertilizer regimen", + "examples": [ + { + "value": "urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fertilizer regimen" + ], + "rank": 242, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000556", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "fungicide_regm": { + "name": "fungicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fungicide name;fungicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens", + "title": "fungicide regimen", + "examples": [ + { + "value": "bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fungicide regimen" + ], + "rank": 243, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000557", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "gaseous_environment": { + "name": "gaseous_environment", + "description": "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens", + "title": "gaseous environment", + "todos": [ + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override", + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override" + ], + "examples": [ + { + "value": "CO2; 500ppm above ambient; constant" + }, + { + "value": "nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 20, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000558", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "genetic_mod": { + "name": "genetic_mod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection", + "title": "genetic modification", + "examples": [ + { + "value": "aox1A transgenic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "genetic modification" + ], + "rank": 244, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000859", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "gravity": { + "name": "gravity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravity factor value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per square second, g" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments", + "title": "gravity", + "examples": [ + { + "value": "12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gravity" + ], + "rank": 245, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000559", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "growth_facil": { + "name": "growth_facil", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text or CO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.", + "title": "growth facility", + "notes": [ + "Removed from description: Alternatively use Crop Ontology (CO) terms" + ], + "examples": [ + { + "value": "Growth chamber [CO_715:0000189]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth facility" + ], + "rank": 1, + "is_a": "core field", + "string_serialization": "{text}|{termLabel} {[termID]}", + "slot_uri": "MIXS:0001043", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "GrowthFacilEnum", + "required": true + }, + "growth_habit": { + "name": "growth_habit", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Characteristic shape, appearance or growth form of a plant species", + "title": "growth habit", + "examples": [ + { + "value": "spreading" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth habit" + ], + "rank": 246, + "is_a": "core field", + "slot_uri": "MIXS:0001044", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "growth_habit_enum" + }, + "growth_hormone_regm": { + "name": "growth_hormone_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "growth hormone name;growth hormone amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens", + "title": "growth hormone regimen", + "examples": [ + { + "value": "abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth hormone regimen" + ], + "rank": 247, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000560", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "herbicide_regm": { + "name": "herbicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "herbicide name;herbicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "herbicide regimen", + "examples": [ + { + "value": "atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "herbicide regimen" + ], + "rank": 248, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000561", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "host_age": { + "name": "host_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year, day, hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees", + "title": "host age", + "examples": [ + { + "value": "10 days" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host age" + ], + "rank": 249, + "is_a": "core field", + "slot_uri": "MIXS:0000255", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_common_name": { + "name": "host_common_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Common name of the host.", + "title": "host common name", + "examples": [ + { + "value": "human" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host common name" + ], + "rank": 250, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000248", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_dry_mass": { + "name": "host_dry_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of dry mass", + "title": "host dry mass", + "examples": [ + { + "value": "500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host dry mass" + ], + "rank": 251, + "is_a": "core field", + "slot_uri": "MIXS:0000257", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_genotype": { + "name": "host_genotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "genotype" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Observed genotype", + "title": "host genotype", + "examples": [ + { + "value": "C57BL/6" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host genotype" + ], + "rank": 252, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000365", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_height": { + "name": "host_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The height of subject", + "title": "host height", + "examples": [ + { + "value": "0.1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host height" + ], + "rank": 253, + "is_a": "core field", + "slot_uri": "MIXS:0000264", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_length": { + "name": "host_length", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length of subject", + "title": "host length", + "examples": [ + { + "value": "1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host length" + ], + "rank": 254, + "is_a": "core field", + "slot_uri": "MIXS:0000256", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_life_stage": { + "name": "host_life_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "stage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of life stage of host", + "title": "host life stage", + "examples": [ + { + "value": "adult" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host life stage" + ], + "rank": 255, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000251", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_phenotype": { + "name": "host_phenotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PATO or HP" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP", + "title": "host phenotype", + "examples": [ + { + "value": "elongated [PATO:0001154]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host phenotype" + ], + "rank": 256, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000874", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_subspecf_genlin": { + "name": "host_subspecf_genlin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.", + "title": "host subspecific genetic lineage", + "examples": [ + { + "value": "serovar:Newport, variety:glabrum, cultivar: Red Delicious" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subspecific genetic lineage" + ], + "rank": 257, + "is_a": "core field", + "string_serialization": "{rank name}:{text}", + "slot_uri": "MIXS:0001318", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_symbiont": { + "name": "host_symbiont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "species name or common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.", + "title": "observed host symbionts", + "examples": [ + { + "value": "flukeworms" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed host symbionts" + ], + "rank": 258, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001298", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_taxid": { + "name": "host_taxid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCBI taxon identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "NCBI taxon id of the host, e.g. 9606", + "title": "host taxid", + "comments": [ + "Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host taxid" + ], + "rank": 259, + "is_a": "core field", + "slot_uri": "MIXS:0000250", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_tot_mass": { + "name": "host_tot_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total mass of the host at collection, the unit depends on host", + "title": "host total mass", + "examples": [ + { + "value": "2500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host total mass" + ], + "rank": 260, + "is_a": "core field", + "slot_uri": "MIXS:0000263", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_wet_mass": { + "name": "host_wet_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of wet mass", + "title": "host wet mass", + "examples": [ + { + "value": "1500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host wet mass" + ], + "rank": 261, + "is_a": "core field", + "slot_uri": "MIXS:0000567", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "humidity_regm": { + "name": "humidity_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "humidity value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "humidity regimen", + "examples": [ + { + "value": "25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity regimen" + ], + "rank": 21, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000568", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "light_regm": { + "name": "light_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "exposure type;light intensity;light quality" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux; micrometer, nanometer, angstrom" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving exposure to light, including both light intensity and quality.", + "title": "light regimen", + "examples": [ + { + "value": "incandescant light;10 lux;450 nanometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "light regimen" + ], + "rank": 24, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000569", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "mechanical_damage": { + "name": "mechanical_damage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "damage type;body site" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about any mechanical damage exerted on the plant; can include multiple damages and sites", + "title": "mechanical damage", + "examples": [ + { + "value": "pruning;bark" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mechanical damage" + ], + "rank": 262, + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0001052", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "mineral_nutr_regm": { + "name": "mineral_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mineral nutrient name;mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens", + "title": "mineral nutrient regimen", + "examples": [ + { + "value": "potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mineral nutrient regimen" + ], + "rank": 263, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000570", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "non_min_nutr_regm": { + "name": "non_min_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens", + "title": "non-mineral nutrient regimen", + "examples": [ + { + "value": "carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "non-mineral nutrient regimen" + ], + "rank": 264, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000571", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "pesticide_regm": { + "name": "pesticide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pesticide name;pesticide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens", + "title": "pesticide regimen", + "examples": [ + { + "value": "pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pesticide regimen" + ], + "rank": 265, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000573", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph_regm": { + "name": "ph_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen", + "title": "pH regimen", + "examples": [ + { + "value": "7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH regimen" + ], + "rank": 266, + "is_a": "core field", + "string_serialization": "{float};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001056", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_growth_med": { + "name": "plant_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "EO or enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary", + "title": "plant growth medium", + "examples": [ + { + "value": "hydroponic plant culture media [EO:0007067]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant growth medium" + ], + "rank": 267, + "is_a": "core field", + "slot_uri": "MIXS:0001057", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_product": { + "name": "plant_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "product name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the plant, where the sample was obtained from", + "title": "plant product", + "examples": [ + { + "value": "xylem sap [PO:0025539]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant product" + ], + "rank": 268, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001058", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_sex": { + "name": "plant_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite.", + "title": "plant sex", + "examples": [ + { + "value": "Hermaphroditic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant sex" + ], + "rank": 269, + "is_a": "core field", + "slot_uri": "MIXS:0001059", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "plant_sex_enum" + }, + "plant_struc": { + "name": "plant_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here.", + "title": "plant structure", + "examples": [ + { + "value": "epidermis [PO:0005679]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant structure" + ], + "rank": 270, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0001060", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "radiation_regm": { + "name": "radiation_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "radiation type name;radiation amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "rad, gray" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens", + "title": "radiation regimen", + "examples": [ + { + "value": "gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "radiation regimen" + ], + "rank": 271, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000575", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "rainfall_regm": { + "name": "rainfall_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "rainfall regimen", + "examples": [ + { + "value": "15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rainfall regimen" + ], + "rank": 272, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000576", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_cond": { + "name": "root_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container.", + "title": "rooting conditions", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting conditions" + ], + "rank": 273, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001061", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_med_carbon": { + "name": "root_med_carbon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "carbon source name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source of organic carbon in the culture rooting medium; e.g. sucrose.", + "title": "rooting medium carbon", + "examples": [ + { + "value": "sucrose" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium carbon" + ], + "rank": 274, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000577", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_macronutr": { + "name": "root_med_macronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "macronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L).", + "title": "rooting medium macronutrients", + "examples": [ + { + "value": "KH2PO4;170¬†milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium macronutrients" + ], + "rank": 275, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000578", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_micronutr": { + "name": "root_med_micronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "micronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L).", + "title": "rooting medium micronutrients", + "examples": [ + { + "value": "H3BO3;6.2¬†milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium micronutrients" + ], + "rank": 276, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000579", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_ph": { + "name": "root_med_ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the culture rooting medium; e.g. 5.5.", + "title": "rooting medium pH", + "examples": [ + { + "value": "7.5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium pH" + ], + "rank": 277, + "is_a": "core field", + "slot_uri": "MIXS:0001062", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "root_med_regl": { + "name": "root_med_regl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "regulator name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA.", + "title": "rooting medium regulators", + "examples": [ + { + "value": "abscisic acid;0.75 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium regulators" + ], + "rank": 278, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000581", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_solid": { + "name": "root_med_solid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the solidifying agent in the culture rooting medium; e.g. agar.", + "title": "rooting medium solidifier", + "examples": [ + { + "value": "agar" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium solidifier" + ], + "rank": 279, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001063", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_med_suppl": { + "name": "root_med_suppl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "supplement name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L).", + "title": "rooting medium organic supplements", + "examples": [ + { + "value": "nicotinic acid;0.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium organic supplements" + ], + "rank": 280, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000580", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salt_regm": { + "name": "salt_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "salt name;salt amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens", + "title": "salt regimen", + "examples": [ + { + "value": "NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salt regimen" + ], + "rank": 281, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000582", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_capt_status": { + "name": "samp_capt_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reason for the sample", + "title": "sample capture status", + "examples": [ + { + "value": "farm sample" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample capture status" + ], + "rank": 282, + "is_a": "core field", + "slot_uri": "MIXS:0000860", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_capt_status_enum" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_dis_stage": { + "name": "samp_dis_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.", + "title": "sample disease stage", + "examples": [ + { + "value": "infection" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample disease stage" + ], + "rank": 283, + "is_a": "core field", + "slot_uri": "MIXS:0000249", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_dis_stage_enum" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season_environment": { + "name": "season_environment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "seasonal environment name;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment", + "title": "seasonal environment", + "examples": [ + { + "value": "rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "seasonal environment" + ], + "rank": 284, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001068", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "standing_water_regm": { + "name": "standing_water_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "standing water type;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "standing water regimen", + "examples": [ + { + "value": "standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "standing water regimen" + ], + "rank": 286, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001069", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tiss_cult_growth_med": { + "name": "tiss_cult_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of plant tissue culture growth media used", + "title": "tissue culture growth media", + "examples": [ + { + "value": "https://link.springer.com/content/pdf/10.1007/BF02796489.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "tissue culture growth media" + ], + "rank": 287, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001070", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "water_temp_regm": { + "name": "water_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "water temperature regimen", + "examples": [ + { + "value": "15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water temperature regimen" + ], + "rank": 288, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000590", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "watering_regm": { + "name": "watering_regm", + "description": "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "watering regimen", + "examples": [ + { + "value": "1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + }, + { + "value": "75% water holding capacity; constant" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000591", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + } + }, + "attributes": { + "air_temp_regm": { + "name": "air_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "temperature value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens", + "title": "air temperature regimen", + "examples": [ + { + "value": "25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air temperature regimen" + ], + "rank": 16, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000551", + "multivalued": false, + "alias": "air_temp_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "ances_data": { + "name": "ances_data", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)", + "title": "ancestral data", + "examples": [ + { + "value": "A/3*B" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ancestral data" + ], + "rank": 237, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000247", + "multivalued": false, + "alias": "ances_data", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "antibiotic_regm": { + "name": "antibiotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "antibiotic name;antibiotic amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens", + "title": "antibiotic regimen", + "examples": [ + { + "value": "penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "antibiotic regimen" + ], + "rank": 238, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000553", + "multivalued": false, + "alias": "antibiotic_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "biol_stat": { + "name": "biol_stat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The level of genome modification.", + "title": "biological status", + "examples": [ + { + "value": "natural" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biological status" + ], + "rank": 239, + "is_a": "core field", + "slot_uri": "MIXS:0000858", + "multivalued": false, + "alias": "biol_stat", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "biol_stat_enum" + }, + "biotic_regm": { + "name": "biotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.", + "title": "biotic regimen", + "examples": [ + { + "value": "sample inoculated with Rhizobium spp. Culture" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biotic regimen" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001038", + "multivalued": false, + "alias": "biotic_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chem_mutagen": { + "name": "chem_mutagen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mutagen name;mutagen amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens", + "title": "chemical mutagen", + "examples": [ + { + "value": "nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical mutagen" + ], + "rank": 240, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000555", + "multivalued": false, + "alias": "chem_mutagen", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "climate_environment": { + "name": "climate_environment", + "description": "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates", + "title": "climate environment", + "todos": [ + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example.", + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001040", + "multivalued": false, + "alias": "climate_environment", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "cult_root_med": { + "name": "cult_root_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name, PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors.", + "title": "culture rooting medium", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "culture rooting medium" + ], + "rank": 241, + "is_a": "core field", + "string_serialization": "{text}|{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001041", + "multivalued": false, + "alias": "cult_root_med", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fertilizer_regm": { + "name": "fertilizer_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fertilizer name;fertilizer amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens", + "title": "fertilizer regimen", + "examples": [ + { + "value": "urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fertilizer regimen" + ], + "rank": 242, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000556", + "multivalued": false, + "alias": "fertilizer_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "fungicide_regm": { + "name": "fungicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "fungicide name;fungicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens", + "title": "fungicide regimen", + "examples": [ + { + "value": "bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fungicide regimen" + ], + "rank": 243, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000557", + "multivalued": false, + "alias": "fungicide_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "gaseous_environment": { + "name": "gaseous_environment", + "description": "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens", + "title": "gaseous environment", + "todos": [ + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override", + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override" + ], + "examples": [ + { + "value": "CO2; 500ppm above ambient; constant" + }, + { + "value": "nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 20, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000558", + "multivalued": false, + "alias": "gaseous_environment", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "genetic_mod": { + "name": "genetic_mod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection", + "title": "genetic modification", + "examples": [ + { + "value": "aox1A transgenic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "genetic modification" + ], + "rank": 244, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0000859", + "multivalued": false, + "alias": "genetic_mod", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "gravity": { + "name": "gravity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gravity factor value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per square second, g" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments", + "title": "gravity", + "examples": [ + { + "value": "12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gravity" + ], + "rank": 245, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000559", + "multivalued": false, + "alias": "gravity", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "growth_facil": { + "name": "growth_facil", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text or CO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.", + "title": "growth facility", + "notes": [ + "Removed from description: Alternatively use Crop Ontology (CO) terms" + ], + "examples": [ + { + "value": "Growth chamber [CO_715:0000189]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth facility" + ], + "rank": 1, + "is_a": "core field", + "string_serialization": "{text}|{termLabel} {[termID]}", + "slot_uri": "MIXS:0001043", + "multivalued": false, + "alias": "growth_facil", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "GrowthFacilEnum", + "required": true + }, + "growth_habit": { + "name": "growth_habit", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Characteristic shape, appearance or growth form of a plant species", + "title": "growth habit", + "examples": [ + { + "value": "spreading" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth habit" + ], + "rank": 246, + "is_a": "core field", + "slot_uri": "MIXS:0001044", + "multivalued": false, + "alias": "growth_habit", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "growth_habit_enum" + }, + "growth_hormone_regm": { + "name": "growth_hormone_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "growth hormone name;growth hormone amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens", + "title": "growth hormone regimen", + "examples": [ + { + "value": "abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth hormone regimen" + ], + "rank": 247, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000560", + "multivalued": false, + "alias": "growth_hormone_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "herbicide_regm": { + "name": "herbicide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "herbicide name;herbicide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "herbicide regimen", + "examples": [ + { + "value": "atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "herbicide regimen" + ], + "rank": 248, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000561", + "multivalued": false, + "alias": "herbicide_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "host_age": { + "name": "host_age", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "year, day, hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees", + "title": "host age", + "examples": [ + { + "value": "10 days" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host age" + ], + "rank": 249, + "is_a": "core field", + "slot_uri": "MIXS:0000255", + "multivalued": false, + "alias": "host_age", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_common_name": { + "name": "host_common_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Common name of the host.", + "title": "host common name", + "examples": [ + { + "value": "human" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host common name" + ], + "rank": 250, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000248", + "multivalued": false, + "alias": "host_common_name", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_dry_mass": { + "name": "host_dry_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of dry mass", + "title": "host dry mass", + "examples": [ + { + "value": "500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host dry mass" + ], + "rank": 251, + "is_a": "core field", + "slot_uri": "MIXS:0000257", + "multivalued": false, + "alias": "host_dry_mass", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_genotype": { + "name": "host_genotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "genotype" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Observed genotype", + "title": "host genotype", + "examples": [ + { + "value": "C57BL/6" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host genotype" + ], + "rank": 252, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000365", + "multivalued": false, + "alias": "host_genotype", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_height": { + "name": "host_height", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The height of subject", + "title": "host height", + "examples": [ + { + "value": "0.1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host height" + ], + "rank": 253, + "is_a": "core field", + "slot_uri": "MIXS:0000264", + "multivalued": false, + "alias": "host_height", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_length": { + "name": "host_length", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "centimeter, millimeter, meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The length of subject", + "title": "host length", + "examples": [ + { + "value": "1 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host length" + ], + "rank": 254, + "is_a": "core field", + "slot_uri": "MIXS:0000256", + "multivalued": false, + "alias": "host_length", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_life_stage": { + "name": "host_life_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "stage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of life stage of host", + "title": "host life stage", + "examples": [ + { + "value": "adult" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host life stage" + ], + "rank": 255, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000251", + "multivalued": false, + "alias": "host_life_stage", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_phenotype": { + "name": "host_phenotype", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PATO or HP" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP", + "title": "host phenotype", + "examples": [ + { + "value": "elongated [PATO:0001154]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host phenotype" + ], + "rank": 256, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000874", + "multivalued": false, + "alias": "host_phenotype", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "host_subspecf_genlin": { + "name": "host_subspecf_genlin", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.", + "title": "host subspecific genetic lineage", + "examples": [ + { + "value": "serovar:Newport, variety:glabrum, cultivar: Red Delicious" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host subspecific genetic lineage" + ], + "rank": 257, + "is_a": "core field", + "string_serialization": "{rank name}:{text}", + "slot_uri": "MIXS:0001318", + "multivalued": false, + "alias": "host_subspecf_genlin", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_symbiont": { + "name": "host_symbiont", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "species name or common name" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.", + "title": "observed host symbionts", + "examples": [ + { + "value": "flukeworms" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed host symbionts" + ], + "rank": 258, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001298", + "multivalued": false, + "alias": "host_symbiont", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_taxid": { + "name": "host_taxid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "NCBI taxon identifier" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "NCBI taxon id of the host, e.g. 9606", + "title": "host taxid", + "comments": [ + "Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host taxid" + ], + "rank": 259, + "is_a": "core field", + "slot_uri": "MIXS:0000250", + "multivalued": false, + "alias": "host_taxid", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "host_tot_mass": { + "name": "host_tot_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total mass of the host at collection, the unit depends on host", + "title": "host total mass", + "examples": [ + { + "value": "2500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host total mass" + ], + "rank": 260, + "is_a": "core field", + "slot_uri": "MIXS:0000263", + "multivalued": false, + "alias": "host_tot_mass", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "host_wet_mass": { + "name": "host_wet_mass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of wet mass", + "title": "host wet mass", + "examples": [ + { + "value": "1500 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "host wet mass" + ], + "rank": 261, + "is_a": "core field", + "slot_uri": "MIXS:0000567", + "multivalued": false, + "alias": "host_wet_mass", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "humidity_regm": { + "name": "humidity_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "humidity value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "humidity regimen", + "examples": [ + { + "value": "25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity regimen" + ], + "rank": 21, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000568", + "multivalued": false, + "alias": "humidity_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "light_regm": { + "name": "light_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "exposure type;light intensity;light quality" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux; micrometer, nanometer, angstrom" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving exposure to light, including both light intensity and quality.", + "title": "light regimen", + "examples": [ + { + "value": "incandescant light;10 lux;450 nanometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "light regimen" + ], + "rank": 24, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000569", + "multivalued": false, + "alias": "light_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "mechanical_damage": { + "name": "mechanical_damage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "damage type;body site" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about any mechanical damage exerted on the plant; can include multiple damages and sites", + "title": "mechanical damage", + "examples": [ + { + "value": "pruning;bark" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mechanical damage" + ], + "rank": 262, + "is_a": "core field", + "string_serialization": "{text};{text}", + "slot_uri": "MIXS:0001052", + "multivalued": false, + "alias": "mechanical_damage", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "mineral_nutr_regm": { + "name": "mineral_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "mineral nutrient name;mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens", + "title": "mineral nutrient regimen", + "examples": [ + { + "value": "potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mineral nutrient regimen" + ], + "rank": 263, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000570", + "multivalued": false, + "alias": "mineral_nutr_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "non_min_nutr_regm": { + "name": "non_min_nutr_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens", + "title": "non-mineral nutrient regimen", + "examples": [ + { + "value": "carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "non-mineral nutrient regimen" + ], + "rank": 264, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000571", + "multivalued": false, + "alias": "non_min_nutr_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "pesticide_regm": { + "name": "pesticide_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pesticide name;pesticide amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens", + "title": "pesticide regimen", + "examples": [ + { + "value": "pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pesticide regimen" + ], + "rank": 265, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000573", + "multivalued": false, + "alias": "pesticide_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph_regm": { + "name": "ph_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen", + "title": "pH regimen", + "examples": [ + { + "value": "7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH regimen" + ], + "rank": 266, + "is_a": "core field", + "string_serialization": "{float};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001056", + "multivalued": false, + "alias": "ph_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_growth_med": { + "name": "plant_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "EO or enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary", + "title": "plant growth medium", + "examples": [ + { + "value": "hydroponic plant culture media [EO:0007067]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant growth medium" + ], + "rank": 267, + "is_a": "core field", + "slot_uri": "MIXS:0001057", + "multivalued": false, + "alias": "plant_growth_med", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_product": { + "name": "plant_product", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "product name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Substance produced by the plant, where the sample was obtained from", + "title": "plant product", + "examples": [ + { + "value": "xylem sap [PO:0025539]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant product" + ], + "rank": 268, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001058", + "multivalued": false, + "alias": "plant_product", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "plant_sex": { + "name": "plant_sex", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite.", + "title": "plant sex", + "examples": [ + { + "value": "Hermaphroditic" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant sex" + ], + "rank": 269, + "is_a": "core field", + "slot_uri": "MIXS:0001059", + "multivalued": false, + "alias": "plant_sex", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "plant_sex_enum" + }, + "plant_struc": { + "name": "plant_struc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here.", + "title": "plant structure", + "examples": [ + { + "value": "epidermis [PO:0005679]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "plant structure" + ], + "rank": 270, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0001060", + "multivalued": false, + "alias": "plant_struc", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "radiation_regm": { + "name": "radiation_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "radiation type name;radiation amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "rad, gray" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens", + "title": "radiation regimen", + "examples": [ + { + "value": "gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "radiation regimen" + ], + "rank": 271, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000575", + "multivalued": false, + "alias": "radiation_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "rainfall_regm": { + "name": "rainfall_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "rainfall regimen", + "examples": [ + { + "value": "15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rainfall regimen" + ], + "rank": 272, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000576", + "multivalued": false, + "alias": "rainfall_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_cond": { + "name": "root_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container.", + "title": "rooting conditions", + "examples": [ + { + "value": "http://himedialabs.com/TD/PT158.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting conditions" + ], + "rank": 273, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001061", + "multivalued": false, + "alias": "root_cond", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_med_carbon": { + "name": "root_med_carbon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "carbon source name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Source of organic carbon in the culture rooting medium; e.g. sucrose.", + "title": "rooting medium carbon", + "examples": [ + { + "value": "sucrose" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium carbon" + ], + "rank": 274, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000577", + "multivalued": false, + "alias": "root_med_carbon", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_macronutr": { + "name": "root_med_macronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "macronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L).", + "title": "rooting medium macronutrients", + "examples": [ + { + "value": "KH2PO4;170¬†milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium macronutrients" + ], + "rank": 275, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000578", + "multivalued": false, + "alias": "root_med_macronutr", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_micronutr": { + "name": "root_med_micronutr", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "micronutrient name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L).", + "title": "rooting medium micronutrients", + "examples": [ + { + "value": "H3BO3;6.2¬†milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium micronutrients" + ], + "rank": 276, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000579", + "multivalued": false, + "alias": "root_med_micronutr", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_ph": { + "name": "root_med_ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the culture rooting medium; e.g. 5.5.", + "title": "rooting medium pH", + "examples": [ + { + "value": "7.5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium pH" + ], + "rank": 277, + "is_a": "core field", + "slot_uri": "MIXS:0001062", + "multivalued": false, + "alias": "root_med_ph", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "root_med_regl": { + "name": "root_med_regl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "regulator name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA.", + "title": "rooting medium regulators", + "examples": [ + { + "value": "abscisic acid;0.75 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium regulators" + ], + "rank": 278, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000581", + "multivalued": false, + "alias": "root_med_regl", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "root_med_solid": { + "name": "root_med_solid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specification of the solidifying agent in the culture rooting medium; e.g. agar.", + "title": "rooting medium solidifier", + "examples": [ + { + "value": "agar" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium solidifier" + ], + "rank": 279, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001063", + "multivalued": false, + "alias": "root_med_solid", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "root_med_suppl": { + "name": "root_med_suppl", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "supplement name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L).", + "title": "rooting medium organic supplements", + "examples": [ + { + "value": "nicotinic acid;0.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "rooting medium organic supplements" + ], + "rank": 280, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000580", + "multivalued": false, + "alias": "root_med_suppl", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salt_regm": { + "name": "salt_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "salt name;salt amount;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens", + "title": "salt regimen", + "examples": [ + { + "value": "NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salt regimen" + ], + "rank": 281, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000582", + "multivalued": false, + "alias": "salt_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_capt_status": { + "name": "samp_capt_status", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reason for the sample", + "title": "sample capture status", + "examples": [ + { + "value": "farm sample" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample capture status" + ], + "rank": 282, + "is_a": "core field", + "slot_uri": "MIXS:0000860", + "multivalued": false, + "alias": "samp_capt_status", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_capt_status_enum" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_dis_stage": { + "name": "samp_dis_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.", + "title": "sample disease stage", + "examples": [ + { + "value": "infection" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample disease stage" + ], + "rank": 283, + "is_a": "core field", + "slot_uri": "MIXS:0000249", + "multivalued": false, + "alias": "samp_dis_stage", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "HostAssociatedInterface", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "samp_dis_stage_enum" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season_environment": { + "name": "season_environment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "seasonal environment name;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment", + "title": "seasonal environment", + "examples": [ + { + "value": "rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "seasonal environment" + ], + "rank": 284, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001068", + "multivalued": false, + "alias": "season_environment", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "standing_water_regm": { + "name": "standing_water_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "standing water type;treatment interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "standing water regimen", + "examples": [ + { + "value": "standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "standing water regimen" + ], + "rank": 286, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001069", + "multivalued": false, + "alias": "standing_water_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tiss_cult_growth_med": { + "name": "tiss_cult_growth_med", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url or free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of plant tissue culture growth media used", + "title": "tissue culture growth media", + "examples": [ + { + "value": "https://link.springer.com/content/pdf/10.1007/BF02796489.pdf" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "tissue culture growth media" + ], + "rank": 287, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001070", + "multivalued": false, + "alias": "tiss_cult_growth_med", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "water_temp_regm": { + "name": "water_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "water temperature regimen", + "examples": [ + { + "value": "15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water temperature regimen" + ], + "rank": 288, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000590", + "multivalued": false, + "alias": "water_temp_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "watering_regm": { + "name": "watering_regm", + "description": "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "watering regimen", + "examples": [ + { + "value": "1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + }, + { + "value": "75% water holding capacity; constant" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000591", + "multivalued": false, + "alias": "watering_regm", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "PlantAssociatedInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "SedimentInterface": { + "name": "SedimentInterface", + "description": "sediment dh_interface", + "title": "Sediment", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "alkalinity", + "alkyl_diethers", + "aminopept_act", + "ammonium", + "bacteria_carb_prod", + "biomass", + "bishomohopanol", + "bromide", + "calcium", + "carb_nitro_ratio", + "chem_administration", + "chloride", + "chlorophyll", + "collection_date", + "density", + "depth", + "diether_lipids", + "diss_carb_dioxide", + "diss_hydrogen", + "diss_inorg_carb", + "diss_org_carb", + "diss_org_nitro", + "diss_oxygen", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "geo_loc_name", + "glucosidase_act", + "horizon_meth", + "lat_lon", + "magnesium", + "mean_frict_vel", + "mean_peak_frict_vel", + "methane", + "misc_param", + "n_alkanes", + "nitrate", + "nitrite", + "nitro", + "org_carb", + "org_matter", + "org_nitro", + "organism_count", + "oxy_stat_samp", + "part_org_carb", + "particle_class", + "perturbation", + "petroleum_hydrocarb", + "ph", + "ph_meth", + "phaeopigments", + "phosphate", + "phosplipid_fatt_acid", + "porosity", + "potassium", + "pressure", + "redox_potential", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "sediment_type", + "silicate", + "size_frac", + "sodium", + "specific_ecosystem", + "sulfate", + "sulfide", + "temp", + "tidal_stage", + "tot_carb", + "tot_depth_water_col", + "tot_nitro_content", + "tot_org_carb", + "turbidity", + "water_content" + ], + "slot_usage": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkyl diethers" + ], + "rank": 2, + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aminopept_act": { + "name": "aminopept_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of aminopeptidase activity", + "title": "aminopeptidase activity", + "examples": [ + { + "value": "0.269 mole per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aminopeptidase activity" + ], + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000172", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bacteria_carb_prod": { + "name": "bacteria_carb_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial carbon production", + "title": "bacterial carbon production", + "examples": [ + { + "value": "2.53 microgram per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bacterial carbon production" + ], + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000173", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? 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Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + "is_a": "core field", + "slot_uri": "MIXS:0000137", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_frict_vel": { + "name": "mean_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean friction velocity", + "title": "mean friction velocity", + "examples": [ + { + "value": "0.5 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean friction velocity" + ], + "rank": 22, + "is_a": "core field", + "slot_uri": "MIXS:0000498", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_peak_frict_vel": { + "name": "mean_peak_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean peak friction velocity", + "title": "mean peak friction velocity", + "examples": [ + { + "value": "1 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean peak friction velocity" + ], + "rank": 23, + "is_a": "core field", + "slot_uri": "MIXS:0000502", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "methane": { + "name": "methane", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per billion, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Methane (gas) amount or concentration at the time of sampling", + "title": "methane", + "examples": [ + { + "value": "1800 parts per billion" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "methane" + ], + "rank": 24, + "is_a": "core field", + "slot_uri": "MIXS:0000101", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "n_alkanes": { + "name": "n_alkanes", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "n-alkane name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of n-alkanes; can include multiple n-alkanes", + "title": "n-alkanes", + "examples": [ + { + "value": "n-hexadecane;100 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "n-alkanes" + ], + "rank": 25, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000503", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + 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While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "sediment_type": { + "name": "sediment_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about the sediment type based on major constituents", + "title": "sediment type", + "examples": [ + { + "value": "biogenous" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sediment type" + ], + "rank": 42, + "is_a": "core field", + "slot_uri": "MIXS:0001078", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "sediment_type_enum" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tidal_stage": { + "name": "tidal_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of tide", + "title": "tidal stage", + "examples": [ + { + "value": "high tide" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "tidal stage" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000750", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "tidal_stage_enum" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_depth_water_col": { + "name": "tot_depth_water_col", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of total depth of water column", + "title": "total depth of water column", + "examples": [ + { + "value": "500 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total depth of water column" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000634", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "turbidity" + ], + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + } + }, + "attributes": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "alias": "alkalinity", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkyl diethers" + ], + "rank": 2, + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "alias": "alkyl_diethers", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "aminopept_act": { + "name": "aminopept_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of aminopeptidase activity", + "title": "aminopeptidase activity", + "examples": [ + { + "value": "0.269 mole per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "aminopeptidase activity" + ], + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000172", + "multivalued": false, + "alias": "aminopept_act", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "alias": "ammonium", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bacteria_carb_prod": { + "name": "bacteria_carb_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of bacterial carbon production", + "title": "bacterial carbon production", + "examples": [ + { + "value": "2.53 microgram per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bacterial carbon production" + ], + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000173", + "multivalued": false, + "alias": "bacteria_carb_prod", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biomass": { + "name": "biomass", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "biomass type;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ton, kilogram, gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements", + "title": "biomass", + "examples": [ + { + "value": "total;20 gram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biomass" + ], + "rank": 6, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000174", + "multivalued": false, + "alias": "biomass", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "bishomohopanol": { + "name": "bishomohopanol", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, microgram per gram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bishomohopanol", + "title": "bishomohopanol", + "examples": [ + { + "value": "14 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bishomohopanol" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000175", + "multivalued": false, + "alias": "bishomohopanol", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "bromide": { + "name": "bromide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of bromide", + "title": "bromide", + "examples": [ + { + "value": "0.05 parts per million" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "bromide" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0000176", + "multivalued": false, + "alias": "bromide", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "calcium": { + "name": "calcium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, micromole per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of calcium in the sample", + "title": "calcium", + "examples": [ + { + "value": "0.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "calcium" + ], + "rank": 9, + "is_a": "core field", + "slot_uri": "MIXS:0000432", + "multivalued": false, + "alias": "calcium", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon/nitrogen ratio" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "alias": "carb_nitro_ratio", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "float", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chloride": { + "name": "chloride", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chloride in the sample", + "title": "chloride", + "examples": [ + { + "value": "5000 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chloride" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000429", + "multivalued": false, + "alias": "chloride", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chlorophyll": { + "name": "chlorophyll", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter, microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of chlorophyll", + "title": "chlorophyll", + "examples": [ + { + "value": "5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chlorophyll" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000177", + "multivalued": false, + "alias": "chlorophyll", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "density": { + "name": "density", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter, gram per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Density of the sample, which is its mass per unit volume (aka volumetric mass density)", + "title": "density", + "examples": [ + { + "value": "1000 kilogram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "density" + ], + "rank": 12, + "is_a": "core field", + "slot_uri": "MIXS:0000435", + "multivalued": false, + "alias": "density", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?$" + }, + "diether_lipids": { + "name": "diether_lipids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "diether lipid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "nanogram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of diether lipids; can include multiple types of diether lipids", + "title": "diether lipids", + "examples": [ + { + "value": "0.2 nanogram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "diether lipids" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000178", + "multivalued": false, + "alias": "diether_lipids", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "alias": "diss_carb_dioxide", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved hydrogen" + ], + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "alias": "diss_hydrogen", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "alias": "diss_inorg_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "alias": "diss_org_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "alias": "diss_org_nitro", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "alias": "diss_oxygen", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + "is_a": "core field", + "slot_uri": "MIXS:0000137", + "multivalued": false, + "alias": "glucosidase_act", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "magnesium": { + "name": "magnesium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter, parts per million, micromole per kilogram" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of magnesium in the sample", + "title": "magnesium", + "examples": [ + { + "value": "52.8 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "magnesium" + ], + "rank": 21, + "is_a": "core field", + "slot_uri": "MIXS:0000431", + "multivalued": false, + "alias": "magnesium", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_frict_vel": { + "name": "mean_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean friction velocity", + "title": "mean friction velocity", + "examples": [ + { + "value": "0.5 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean friction velocity" + ], + "rank": 22, + "is_a": "core field", + "slot_uri": "MIXS:0000498", + "multivalued": false, + "alias": "mean_frict_vel", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_peak_frict_vel": { + "name": "mean_peak_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean peak friction velocity", + "title": "mean peak friction velocity", + "examples": [ + { + "value": "1 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean peak friction velocity" + ], + "rank": 23, + "is_a": "core field", + "slot_uri": "MIXS:0000502", + "multivalued": false, + "alias": "mean_peak_frict_vel", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "methane": { + "name": "methane", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, parts per billion, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Methane (gas) amount or concentration at the time of sampling", + "title": "methane", + "examples": [ + { + "value": "1800 parts per billion" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "methane" + ], + "rank": 24, + "is_a": "core field", + "slot_uri": "MIXS:0000101", + "multivalued": false, + "alias": "methane", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "n_alkanes": { + "name": "n_alkanes", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "n-alkane name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of n-alkanes; can include multiple n-alkanes", + "title": "n-alkanes", + "examples": [ + { + "value": "n-hexadecane;100 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "n-alkanes" + ], + "rank": 25, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000503", + "multivalued": false, + "alias": "n_alkanes", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "alias": "nitrate", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "alias": "nitrite", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitro": { + "name": "nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrogen (total)", + "title": "nitrogen", + "examples": [ + { + "value": "4.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrogen" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0000504", + "multivalued": false, + "alias": "nitro", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_carb": { + "name": "org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic carbon", + "title": "organic carbon", + "examples": [ + { + "value": "1.5 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic carbon" + ], + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000508", + "multivalued": false, + "alias": "org_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_matter": { + "name": "org_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic matter" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "alias": "org_matter", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic nitrogen" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "alias": "org_nitro", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "part_org_carb": { + "name": "part_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of particulate organic carbon", + "title": "particulate organic carbon", + "examples": [ + { + "value": "1.92 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "particulate organic carbon" + ], + "rank": 31, + "is_a": "core field", + "slot_uri": "MIXS:0000515", + "multivalued": false, + "alias": "part_org_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "particle_class": { + "name": "particle_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values", + "title": "particle classification", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "particle classification" + ], + "rank": 32, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000206", + "multivalued": false, + "alias": "particle_class", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? 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While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "sediment_type": { + "name": "sediment_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about the sediment type based on major constituents", + "title": "sediment type", + "examples": [ + { + "value": "biogenous" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sediment type" + ], + "rank": 42, + "is_a": "core field", + "slot_uri": "MIXS:0001078", + "multivalued": false, + "alias": "sediment_type", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "SedimentInterface" + ], + "slot_group": "mixs_core_section", + "range": "sediment_type_enum" + }, + "silicate": { + "name": "silicate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of silicate", + "title": "silicate", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "silicate" + ], + "rank": 43, + "is_a": "core field", + "slot_uri": "MIXS:0000184", + "multivalued": false, + "alias": "silicate", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "sulfate": { + "name": "sulfate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfate in the sample", + "title": "sulfate", + "examples": [ + { + "value": "5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfate" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000423", + "multivalued": false, + "alias": "sulfate", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sulfide": { + "name": "sulfide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of sulfide in the sample", + "title": "sulfide", + "examples": [ + { + "value": "2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sulfide" + ], + "rank": 371, + "is_a": "core field", + "slot_uri": "MIXS:0000424", + "multivalued": false, + "alias": "sulfide", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tidal_stage": { + "name": "tidal_stage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Stage of tide", + "title": "tidal stage", + "examples": [ + { + "value": "high tide" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "tidal stage" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000750", + "multivalued": false, + "alias": "tidal_stage", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "tidal_stage_enum" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "alias": "tot_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_depth_water_col": { + "name": "tot_depth_water_col", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of total depth of water column", + "title": "total depth of water column", + "examples": [ + { + "value": "500 meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total depth of water column" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000634", + "multivalued": false, + "alias": "tot_depth_water_col", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "alias": "tot_nitro_content", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "alias": "tot_org_carb", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "turbidity" + ], + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "alias": "turbidity", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "alias": "water_content", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "SedimentInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "SoilInterface": { + "name": "SoilInterface", + "description": "soil dh_interface", + "title": "Soil", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin", + "SoilMixsInspiredMixin" + ], + "slots": [ + "agrochem_addition", + "air_temp_regm", + "al_sat", + "al_sat_meth", + "ammonium_nitrogen", + "annual_precpt", + "annual_temp", + "biotic_regm", + "biotic_relationship", + "carb_nitro_ratio", + "chem_administration", + "climate_environment", + "collection_date", + "collection_date_inc", + "collection_time", + "collection_time_inc", + "crop_rotation", + "cur_land_use", + "cur_vegetation", + "cur_vegetation_meth", + "depth", + "drainage_class", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "elev", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "experimental_factor_other", + "extreme_event", + "fao_class", + "filter_method", + "fire", + "flooding", + "gaseous_environment", + "geo_loc_name", + "growth_facil", + "heavy_metals", + "heavy_metals_meth", + "horizon_meth", + "humidity_regm", + "isotope_exposure", + "lat_lon", + "lbc_thirty", + "lbceq", + "light_regm", + "link_class_info", + "link_climate_info", + "local_class", + "local_class_meth", + "manganese", + "micro_biomass_c_meth", + "micro_biomass_c_meth", + "micro_biomass_meth", + "micro_biomass_n_meth", + "micro_biomass_n_meth", + "microbial_biomass", + "microbial_biomass_c", + "microbial_biomass_c", + "microbial_biomass_n", + "microbial_biomass_n", + "misc_param", + "nitrate_nitrogen", + "nitrite_nitrogen", + "non_microb_biomass", + "non_microb_biomass_method", + "org_matter", + "org_nitro", + "org_nitro_method", + "other_treatment", + "oxy_stat_samp", + "ph", + "ph_meth", + "phosphate", + "prev_land_use_meth", + "previous_land_use", + "profile_position", + "salinity", + "salinity_meth", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_temp", + "sample_link", + "season_precpt", + "season_temp", + "sieving", + "size_frac_low", + "size_frac_up", + "slope_aspect", + "slope_gradient", + "soil_horizon", + "soil_text_measure", + "soil_texture_meth", + "soil_type", + "soil_type_meth", + "specific_ecosystem", + "start_date_inc", + "start_time_inc", + "store_cond", + "temp", + "tillage", + "tot_carb", + "tot_nitro_cont_meth", + "tot_nitro_content", + "tot_org_c_meth", + "tot_org_carb", + "tot_phosp", + "water_cont_soil_meth", + "water_content", + "watering_regm", + "zinc" + ], + "slot_usage": { + "agrochem_addition": { + "name": "agrochem_addition", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "agrochemical name;agrochemical amount;timestamp" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Addition of fertilizers, pesticides, etc. - amount and time of applications", + "title": "history/agrochemical additions", + "examples": [ + { + "value": "roundup;5 milligram per liter;2018-06-21" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/agrochemical additions" + ], + "rank": 2, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{timestamp}", + "slot_uri": "MIXS:0000639", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": ".*" + }, + "air_temp_regm": { + "name": "air_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "temperature value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens", + "title": "air temperature regimen", + "examples": [ + { + "value": "25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air temperature regimen" + ], + "rank": 16, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000551", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "al_sat": { + "name": "al_sat", + "description": "The relative abundance of aluminum in the sample", + "title": "aluminum saturation/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement." + ], + "comments": [ + "Aluminum saturation is the percentage of the CEC occupies by aluminum. Like all cations, aluminum held by the cation exchange complex is in equilibrium with aluminum in the soil solution." + ], + "examples": [ + { + "value": "0.27" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000607", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "al_sat_meth": { + "name": "al_sat_meth", + "description": "Reference or method used in determining Aluminum saturation", + "title": "aluminum saturation method/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts?" + ], + "comments": [ + "Required when aluminum saturation is provided." + ], + "examples": [ + { + "value": "https://doi.org/10.1371/journal.pone.0176357" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000324", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "ammonium_nitrogen": { + "name": "ammonium_nitrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium nitrogen in the sample", + "title": "ammonium nitrogen", + "examples": [ + { + "value": "2.3 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "ammonium_nitrogen", + "NH4-N" + ], + "rank": 1005, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "annual_precpt": { + "name": "annual_precpt", + "description": "The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "mean annual precipitation", + "todos": [ + "This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot" + ], + "examples": [ + { + "value": "8.94 inch" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000644", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "annual_temp": { + "name": "annual_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean annual temperature", + "title": "mean annual temperature", + "examples": [ + { + "value": "12.5 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean annual temperature" + ], + "rank": 6, + "is_a": "core field", + "slot_uri": "MIXS:0000642", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biotic_regm": { + "name": "biotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.", + "title": "biotic regimen", + "examples": [ + { + "value": "sample inoculated with Rhizobium spp. Culture" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biotic regimen" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001038", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "biotic_relationship": { + "name": "biotic_relationship", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + } + }, + "description": "Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object", + "title": "observed biotic relationship", + "examples": [ + { + "value": "free living" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed biotic relationship" + ], + "rank": 22, + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000028", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "biotic_relationship_enum" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon/nitrogen ratio" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "float", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "climate_environment": { + "name": "climate_environment", + "description": "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates", + "title": "climate environment", + "todos": [ + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example.", + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001040", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "collection_date_inc": { + "name": "collection_date_inc", + "description": "Date the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 2, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "collection_time": { + "name": "collection_time", + "description": "The time of sampling, either as an instance (single point) or interval.", + "title": "collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 1, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "collection_time_inc": { + "name": "collection_time_inc", + "description": "Time the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 3, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "crop_rotation": { + "name": "crop_rotation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "crop rotation status;schedule" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not crop is rotated, and if yes, rotation schedule", + "title": "history/crop rotation", + "examples": [ + { + "value": "yes;R2/2017-01-01/2018-12-31/P6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/crop rotation" + ], + "rank": 7, + "is_a": "core field", + "string_serialization": "{boolean};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000318", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "cur_land_use": { + "name": "cur_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Present state of sample site", + "title": "current land use", + "examples": [ + { + "value": "conifers" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "current land use" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0001080", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "cur_land_use_enum" + }, + "cur_vegetation": { + "name": "cur_vegetation", + "description": "Vegetation classification from one or more standard classification systems, or agricultural crop", + "title": "current vegetation", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Recommend changing this from text value to some king of ontology?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Recommend changing this from text value to some kind of ontology?" + ], + "comments": [ + "Values provided here can be specific species of vegetation or vegetation regions", + "See for vegetation regions- https://education.nationalgeographic.org/resource/vegetation-region" + ], + "examples": [ + { + "value": "deciduous forest" + }, + { + "value": "forest" + }, + { + "value": "Bauhinia variegata" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000312", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "cur_vegetation_meth": { + "name": "cur_vegetation_meth", + "description": "Reference or method used in vegetation classification", + "title": "current vegetation method", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided." + ], + "comments": [ + "Required when current vegetation is provided." + ], + "examples": [ + { + "value": "https://doi.org/10.1111/j.1654-109X.2011.01154.x" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000314", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?$" + }, + "drainage_class": { + "name": "drainage_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Drainage classification from a standard system such as the USDA system", + "title": "drainage classification", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "drainage classification" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0001085", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "drainage_class_enum" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemEnum", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemCategoryEnum", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemSubtypeEnum", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemTypeEnum", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvBroadScaleSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvLocalScaleSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvMediumSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "experimental_factor_other": { + "name": "experimental_factor_other", + "description": "Other details about your sample that you feel can't be accurately represented in the available columns.", + "title": "experimental factor- other", + "comments": [ + "This slot accepts open-ended text about your sample.", + "We recommend using key:value pairs.", + "Provided pairs will be considered for inclusion as future slots/terms in this data collection template." + ], + "examples": [ + { + "value": "experimental treatment: value" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:experimental_factor|additional_info" + ], + "rank": 7, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "extreme_event": { + "name": "extreme_event", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date, string" + } + }, + "description": "Unusual physical events that may have affected microbial populations", + "title": "history/extreme events", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "examples": [ + { + "value": "1980-05-18, volcanic eruption" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "is_a": "core field", + "slot_uri": "MIXS:0000320", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fao_class": { + "name": "fao_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups", + "title": "soil_taxonomic/FAO classification", + "examples": [ + { + "value": "Luvisols" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil_taxonomic/FAO classification" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0001083", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "fao_class_enum" + }, + "filter_method": { + "name": "filter_method", + "description": "Type of filter used or how the sample was filtered", + "title": "filter method", + "comments": [ + "describe the filter or provide a catalog number and manufacturer" + ], + "examples": [ + { + "value": "C18" + }, + { + "value": "Basix PES, 13-100-106 FisherSci" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:filter_type" + ], + "rank": 6, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "fire": { + "name": "fire", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date string" + } + }, + "description": "Historical and/or physical evidence of fire", + "title": "history/fire", + "todos": [ + "is \"to\" acceptable? Is there a better way to request that be written?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "is \"to\" acceptable? Is there a better way to request that be written?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Provide the date the fire occurred. If extended burning occurred provide the date range." + ], + "examples": [ + { + "value": "1871-10-10" + }, + { + "value": "1871-10-01 to 1871-10-31" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0001086", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?(\\s+to\\s+[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?)?$" + }, + "flooding": { + "name": "flooding", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date string" + } + }, + "description": "Historical and/or physical evidence of flooding", + "title": "history/flooding", + "todos": [ + "is \"to\" acceptable? Is there a better way to request that be written?", + "What about if the \"day\" isn't known? Is this ok?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "is \"to\" acceptable? Is there a better way to request that be written?", + "What about if the \"day\" isn't known? Is this ok?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Provide the date the flood occurred. If extended flooding occurred provide the date range." + ], + "examples": [ + { + "value": "1927-04-15" + }, + { + "value": "1927-04 to 1927-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000319", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "gaseous_environment": { + "name": "gaseous_environment", + "description": "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens", + "title": "gaseous environment", + "todos": [ + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override", + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override" + ], + "examples": [ + { + "value": "CO2; 500ppm above ambient; constant" + }, + { + "value": "nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 20, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000558", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "growth_facil": { + "name": "growth_facil", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text or CO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.", + "title": "growth facility", + "notes": [ + "Removed from description: Alternatively use Crop Ontology (CO) terms" + ], + "examples": [ + { + "value": "Growth chamber [CO_715:0000189]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth facility" + ], + "rank": 1, + "is_a": "core field", + "string_serialization": "{text}|{termLabel} {[termID]}", + "slot_uri": "MIXS:0001043", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "GrowthFacilEnum", + "required": true + }, + "heavy_metals": { + "name": "heavy_metals", + "description": "Heavy metals present in the sample and their concentrations.", + "title": "heavy metals/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement." + ], + "notes": [ + "Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal.", + "Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal." + ], + "comments": [ + "For multiple heavy metals and concentrations, separate by ;" + ], + "examples": [ + { + "value": "mercury 0.09 micrograms per gram" + }, + { + "value": "mercury 0.09 ug/g; chromium 0.03 ug/g" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000652", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "heavy_metals_meth": { + "name": "heavy_metals_meth", + "description": "Reference or method used in determining heavy metals", + "title": "heavy metals method/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Required when heavy metals are provided", + "If different methods are used for multiple metals, indicate the metal and method. Separate metals by ;" + ], + "examples": [ + { + "value": "https://doi.org/10.3390/ijms9040434" + }, + { + "value": "mercury https://doi.org/10.1007/BF01056090; chromium https://doi.org/10.1007/s00216-006-0322-8" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000343", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "soil horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "humidity_regm": { + "name": "humidity_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "humidity value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "humidity regimen", + "examples": [ + { + "value": "25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity regimen" + ], + "rank": 21, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000568", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "isotope_exposure": { + "name": "isotope_exposure", + "description": "List isotope exposure or addition applied to your sample.", + "title": "isotope exposure/addition", + "todos": [ + "Can we make the H218O correctly super and subscripted?" + ], + "comments": [ + "This is required when your experimental design includes the use of isotopically labeled compounds" + ], + "examples": [ + { + "value": "13C glucose" + }, + { + "value": "H218O" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:chem_administration" + ], + "rank": 16, + "string_serialization": "{termLabel} {[termID]}; {timestamp}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]; ([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + 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liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic matter" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic nitrogen" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro_method": { + "name": "org_nitro_method", + "description": "Method used for obtaining organic nitrogen", + "title": "organic nitrogen method", + "comments": [ + "required if \"org_nitro\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(85)90144-0" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:org_nitro|tot_nitro_cont_meth" + ], + "rank": 14, + "string_serialization": "{PMID}|{DOI}|{URL}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string" + }, + "other_treatment": { + "name": "other_treatment", + "description": "Other treatments applied to your samples that are not applicable to the provided fields", + "title": "other treatments", + "comments": [ + "This is an open text field to provide any treatments that cannot be captured in the provided slots." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:additional_info" + ], + "rank": 15, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prev_land_use_meth": { + "name": "prev_land_use_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining previous land use and dates", + "title": "history/previous land use method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/previous land use method" + ], + "rank": 26, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000316", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "previous_land_use": { + "name": "previous_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "land use name;date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Previous land use and dates", + "title": "history/previous land use", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/previous land use" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{text};{timestamp}", + "slot_uri": "MIXS:0000315", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^\\S+.*\\S+;([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "profile_position": { + "name": "profile_position", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas", + "title": "profile position", + "examples": [ + { + "value": "summit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "profile position" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0001084", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "profile_position_enum" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity_meth": { + "name": "salinity_meth", + "description": "Reference or method used in determining salinity", + "title": "salinity method", + "examples": [ + { + "value": "https://doi.org/10.1007/978-1-61779-986-0_28" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 55, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000341", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season_precpt": { + "name": "season_precpt", + "description": "The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "average seasonal precipitation", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "check validation & examples. always mm? so value only? Or value + unit", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "check validation & examples. always mm? so value only? Or value + unit" + ], + "notes": [ + "mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average", + "mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average" + ], + "comments": [ + "Seasons are defined as spring (March, April, May), summer (June, July, August), autumn (September, October, November) and winter (December, January, February)." + ], + "examples": [ + { + "value": "0.4 inch" + }, + { + "value": "10.16 mm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000645", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "season_temp": { + "name": "season_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean seasonal temperature", + "title": "mean seasonal temperature", + "examples": [ + { + "value": "18 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean seasonal temperature" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000643", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sieving": { + "name": "sieving", + "description": "Collection design of pooled samples and/or sieve size and amount of sample sieved", + "title": "composite design/sieving", + "todos": [ + "check validation and examples", + "check validation and examples" + ], + "comments": [ + "Describe how samples were composited or sieved.", + "Use 'sample link' to indicate which samples were combined." + ], + "examples": [ + { + "value": "combined 2 cores" + }, + { + "value": "4mm sieved" + }, + { + "value": "4 mm sieved and homogenized" + }, + { + "value": "50 g" + }, + { + "value": "5 cores" + }, + { + "value": "2 mm sieved" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "core field", + "string_serialization": "{{text}|{float} {unit}};{float} {unit}", + "slot_uri": "MIXS:0000322", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "size_frac_low": { + "name": "size_frac_low", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample", + "title": "size-fraction lower threshold", + "examples": [ + { + "value": "0.2 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size-fraction lower threshold" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000735", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac_up": { + "name": "size_frac_up", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample", + "title": "size-fraction upper threshold", + "examples": [ + { + "value": "20 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size-fraction upper threshold" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000736", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "slope_aspect": { + "name": "slope_aspect", + "description": "The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees). - This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration.", + "title": "slope aspect", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Aspect is the orientation of slope, measured clockwise in degrees from 0 to 360, where 0 is north-facing, 90 is east-facing, 180 is south-facing, and 270 is west-facing." + ], + "examples": [ + { + "value": "35" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000647", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "slope_gradient": { + "name": "slope_gradient", + "description": "Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer", + "title": "slope gradient", + "todos": [ + "Slope is a percent. How does the validation work? Check to correct examples", + "Slope is a percent. How does the validation work? Check to correct examples" + ], + "examples": [ + { + "value": "10%" + }, + { + "value": "10 %" + }, + { + "value": "0.1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 31, + "is_a": "core field", + "slot_uri": "MIXS:0000646", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "soil_horizon": { + "name": "soil_horizon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath", + "title": "soil horizon", + "examples": [ + { + "value": "A horizon" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon" + ], + "rank": 32, + "is_a": "core field", + "slot_uri": "MIXS:0001082", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "soil_horizon_enum" + }, + "soil_text_measure": { + "name": "soil_text_measure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional.", + "title": "soil texture measurement", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil texture measurement" + ], + "rank": 33, + "is_a": "core field", + "slot_uri": "MIXS:0000335", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "soil_texture_meth": { + "name": "soil_texture_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil texture", + "title": "soil texture method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil texture method" + ], + "rank": 34, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000336", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "soil_type": { + "name": "soil_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ENVO_00001998" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes.", + "title": "soil type", + "examples": [ + { + "value": "plinthosol [ENVO:00002250]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil type" + ], + "rank": 35, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000332", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "soil_type_meth": { + "name": "soil_type_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil series name or other lower-level classification", + "title": "soil type method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil type method" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000334", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "SpecificEcosystemEnum", + "recommended": true + }, + "start_date_inc": { + "name": "start_date_inc", + "description": "Date the incubation was started. Only relevant for incubation samples.", + "title": "incubation start date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 4, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "start_time_inc": { + "name": "start_time_inc", + "description": "Time the incubation was started. Only relevant for incubation samples.", + "title": "incubation start time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 5, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "store_cond": { + "name": "store_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "storage condition type;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Explain how the soil sample is stored (fresh/frozen/other).", + "title": "storage conditions", + "examples": [ + { + "value": "-20 degree Celsius freezer;P2Y10D" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "storage conditions" + ], + "rank": 2, + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000327", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "StoreCondEnum", + "required": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tillage": { + "name": "tillage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Note method(s) used for tilling", + "title": "history/tillage", + "examples": [ + { + "value": "chisel" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/tillage" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0001081", + "multivalued": true, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "tillage_enum" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_cont_meth": { + "name": "tot_nitro_cont_meth", + "description": "Reference or method used in determining the total nitrogen", + "title": "total nitrogen content method", + "examples": [ + { + "value": "https://doi.org/10.2134/agronmonogr9.2.c32" + }, + { + "value": "https://acsess.onlinelibrary.wiley.com/doi/full/10.2136/sssaj2009.0389?casa_token=bm0pYIUdNMgAAAAA%3AOWVRR0STHaOe-afTcTdxn5m1hM8n2ltM0wY-b1iYpYdD9dhwppk5j3LvC2IO5yhOIvyLVeQz4NZRCZo" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 49, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000338", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_c_meth": { + "name": "tot_org_c_meth", + "description": "Reference or method used in determining total organic carbon", + "title": "total organic carbon method", + "examples": [ + { + "value": "https://doi.org/10.1080/07352680902776556" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 51, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000337", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total phosphorus" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_cont_soil_meth": { + "name": "water_cont_soil_meth", + "description": "Reference or method used in determining the water content of soil", + "title": "water content method", + "todos": [ + "Why is it soil water content method in the name but not the title? Is this slot used in other samples?", + "Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).", + "Should this be multi valued? How to we manage and validate this?", + "Why is it soil water content method in the name but not the title? Is this slot used in other samples?", + "Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).", + "Should this be multi valued? How to we manage and validate this?" + ], + "comments": [ + "Required if providing water content" + ], + "examples": [ + { + "value": "J. Nat. Prod. Plant Resour., 2012, 2 (4):500-503" + }, + { + "value": "https://dec.alaska.gov/applications/spar/webcalc/definitions.htm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 40, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000323", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + }, + "watering_regm": { + "name": "watering_regm", + "description": "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "watering regimen", + "examples": [ + { + "value": "1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + }, + { + "value": "75% water holding capacity; constant" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000591", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "zinc": { + "name": "zinc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg (ppm)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of zinc in the sample", + "title": "zinc", + "examples": [ + { + "value": "2.5 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "zinc" + ], + "rank": 1004, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "organism_count": { + "name": "organism_count", + "multivalued": false, + "range": "string", + "pattern": "^(\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+.*\\S+;(qPCR|ATP|MPN|other)\\|)*(\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+.*\\S+;(qPCR|ATP|MPN|other))$" + } + }, + "attributes": { + "agrochem_addition": { + "name": "agrochem_addition", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "agrochemical name;agrochemical amount;timestamp" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Addition of fertilizers, pesticides, etc. - amount and time of applications", + "title": "history/agrochemical additions", + "examples": [ + { + "value": "roundup;5 milligram per liter;2018-06-21" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/agrochemical additions" + ], + "rank": 2, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{timestamp}", + "slot_uri": "MIXS:0000639", + "multivalued": false, + "alias": "agrochem_addition", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": ".*" + }, + "air_temp_regm": { + "name": "air_temp_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "temperature value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens", + "title": "air temperature regimen", + "examples": [ + { + "value": "25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "air temperature regimen" + ], + "rank": 16, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000551", + "multivalued": false, + "alias": "air_temp_regm", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "al_sat": { + "name": "al_sat", + "description": "The relative abundance of aluminum in the sample", + "title": "aluminum saturation/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement." + ], + "comments": [ + "Aluminum saturation is the percentage of the CEC occupies by aluminum. Like all cations, aluminum held by the cation exchange complex is in equilibrium with aluminum in the soil solution." + ], + "examples": [ + { + "value": "0.27" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 3, + "is_a": "core field", + "slot_uri": "MIXS:0000607", + "multivalued": false, + "alias": "al_sat", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "al_sat_meth": { + "name": "al_sat_meth", + "description": "Reference or method used in determining Aluminum saturation", + "title": "aluminum saturation method/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts?" + ], + "comments": [ + "Required when aluminum saturation is provided." + ], + "examples": [ + { + "value": "https://doi.org/10.1371/journal.pone.0176357" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 4, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000324", + "multivalued": false, + "alias": "al_sat_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "ammonium_nitrogen": { + "name": "ammonium_nitrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium nitrogen in the sample", + "title": "ammonium nitrogen", + "examples": [ + { + "value": "2.3 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "ammonium_nitrogen", + "NH4-N" + ], + "rank": 1005, + "is_a": "attribute", + "multivalued": false, + "alias": "ammonium_nitrogen", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "annual_precpt": { + "name": "annual_precpt", + "description": "The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "mean annual precipitation", + "todos": [ + "This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot" + ], + "examples": [ + { + "value": "8.94 inch" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "core field", + "slot_uri": "MIXS:0000644", + "multivalued": false, + "alias": "annual_precpt", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "annual_temp": { + "name": "annual_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean annual temperature", + "title": "mean annual temperature", + "examples": [ + { + "value": "12.5 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean annual temperature" + ], + "rank": 6, + "is_a": "core field", + "slot_uri": "MIXS:0000642", + "multivalued": false, + "alias": "annual_temp", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biotic_regm": { + "name": "biotic_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.", + "title": "biotic regimen", + "examples": [ + { + "value": "sample inoculated with Rhizobium spp. Culture" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biotic regimen" + ], + "rank": 13, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001038", + "multivalued": false, + "alias": "biotic_regm", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "biotic_relationship": { + "name": "biotic_relationship", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + } + }, + "description": "Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object", + "title": "observed biotic relationship", + "examples": [ + { + "value": "free living" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "observed biotic relationship" + ], + "rank": 22, + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000028", + "multivalued": false, + "alias": "biotic_relationship", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "biotic_relationship_enum" + }, + "carb_nitro_ratio": { + "name": "carb_nitro_ratio", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ratio of amount or concentrations of carbon to nitrogen", + "title": "carbon/nitrogen ratio", + "examples": [ + { + "value": "0.417361111" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "carbon/nitrogen ratio" + ], + "rank": 44, + "is_a": "core field", + "slot_uri": "MIXS:0000310", + "multivalued": false, + "alias": "carb_nitro_ratio", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "float", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "alias": "chem_administration", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "climate_environment": { + "name": "climate_environment", + "description": "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates", + "title": "climate environment", + "todos": [ + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example.", + "description says \"can include multiple climates\" but multivalued is set to false", + "add examples, i need to see some examples to add correctly formatted example." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 19, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0001040", + "multivalued": false, + "alias": "climate_environment", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "alias": "collection_date", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "collection_date_inc": { + "name": "collection_date_inc", + "description": "Date the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 2, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "alias": "collection_date_inc", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "collection_time": { + "name": "collection_time", + "description": "The time of sampling, either as an instance (single point) or interval.", + "title": "collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 1, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "collection_time", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "collection_time_inc": { + "name": "collection_time_inc", + "description": "Time the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 3, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "collection_time_inc", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "crop_rotation": { + "name": "crop_rotation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "crop rotation status;schedule" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Whether or not crop is rotated, and if yes, rotation schedule", + "title": "history/crop rotation", + "examples": [ + { + "value": "yes;R2/2017-01-01/2018-12-31/P6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/crop rotation" + ], + "rank": 7, + "is_a": "core field", + "string_serialization": "{boolean};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000318", + "multivalued": false, + "alias": "crop_rotation", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "cur_land_use": { + "name": "cur_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Present state of sample site", + "title": "current land use", + "examples": [ + { + "value": "conifers" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "current land use" + ], + "rank": 8, + "is_a": "core field", + "slot_uri": "MIXS:0001080", + "multivalued": false, + "alias": "cur_land_use", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "cur_land_use_enum" + }, + "cur_vegetation": { + "name": "cur_vegetation", + "description": "Vegetation classification from one or more standard classification systems, or agricultural crop", + "title": "current vegetation", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Recommend changing this from text value to some king of ontology?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Recommend changing this from text value to some kind of ontology?" + ], + "comments": [ + "Values provided here can be specific species of vegetation or vegetation regions", + "See for vegetation regions- https://education.nationalgeographic.org/resource/vegetation-region" + ], + "examples": [ + { + "value": "deciduous forest" + }, + { + "value": "forest" + }, + { + "value": "Bauhinia variegata" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 9, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000312", + "multivalued": false, + "alias": "cur_vegetation", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "cur_vegetation_meth": { + "name": "cur_vegetation_meth", + "description": "Reference or method used in vegetation classification", + "title": "current vegetation method", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided." + ], + "comments": [ + "Required when current vegetation is provided." + ], + "examples": [ + { + "value": "https://doi.org/10.1111/j.1654-109X.2011.01154.x" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 10, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000314", + "multivalued": false, + "alias": "cur_vegetation_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "alias": "depth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?$" + }, + "drainage_class": { + "name": "drainage_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Drainage classification from a standard system such as the USDA system", + "title": "drainage classification", + "examples": [ + { + "value": "well" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "drainage classification" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0001085", + "multivalued": false, + "alias": "drainage_class", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "drainage_class_enum" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "alias": "ecosystem", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemEnum", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "alias": "ecosystem_category", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemCategoryEnum", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "alias": "ecosystem_subtype", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemSubtypeEnum", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "alias": "ecosystem_type", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EcosystemTypeEnum", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvBroadScaleSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvLocalScaleSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "EnvMediumSoilEnum", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "experimental_factor_other": { + "name": "experimental_factor_other", + "description": "Other details about your sample that you feel can't be accurately represented in the available columns.", + "title": "experimental factor- other", + "comments": [ + "This slot accepts open-ended text about your sample.", + "We recommend using key:value pairs.", + "Provided pairs will be considered for inclusion as future slots/terms in this data collection template." + ], + "examples": [ + { + "value": "experimental treatment: value" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:experimental_factor|additional_info" + ], + "rank": 7, + "string_serialization": "{text}", + "multivalued": false, + "alias": "experimental_factor_other", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "extreme_event": { + "name": "extreme_event", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date, string" + } + }, + "description": "Unusual physical events that may have affected microbial populations", + "title": "history/extreme events", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "examples": [ + { + "value": "1980-05-18, volcanic eruption" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 13, + "is_a": "core field", + "slot_uri": "MIXS:0000320", + "multivalued": false, + "alias": "extreme_event", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fao_class": { + "name": "fao_class", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups", + "title": "soil_taxonomic/FAO classification", + "examples": [ + { + "value": "Luvisols" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil_taxonomic/FAO classification" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0001083", + "multivalued": false, + "alias": "fao_class", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "fao_class_enum" + }, + "filter_method": { + "name": "filter_method", + "description": "Type of filter used or how the sample was filtered", + "title": "filter method", + "comments": [ + "describe the filter or provide a catalog number and manufacturer" + ], + "examples": [ + { + "value": "C18" + }, + { + "value": "Basix PES, 13-100-106 FisherSci" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:filter_type" + ], + "rank": 6, + "string_serialization": "{text}", + "multivalued": false, + "alias": "filter_method", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "fire": { + "name": "fire", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date string" + } + }, + "description": "Historical and/or physical evidence of fire", + "title": "history/fire", + "todos": [ + "is \"to\" acceptable? Is there a better way to request that be written?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "is \"to\" acceptable? Is there a better way to request that be written?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Provide the date the fire occurred. If extended burning occurred provide the date range." + ], + "examples": [ + { + "value": "1871-10-10" + }, + { + "value": "1871-10-01 to 1871-10-31" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0001086", + "multivalued": false, + "alias": "fire", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?(\\s+to\\s+[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?)?$" + }, + "flooding": { + "name": "flooding", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date string" + } + }, + "description": "Historical and/or physical evidence of flooding", + "title": "history/flooding", + "todos": [ + "is \"to\" acceptable? Is there a better way to request that be written?", + "What about if the \"day\" isn't known? Is this ok?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "is \"to\" acceptable? Is there a better way to request that be written?", + "What about if the \"day\" isn't known? Is this ok?", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Provide the date the flood occurred. If extended flooding occurred provide the date range." + ], + "examples": [ + { + "value": "1927-04-15" + }, + { + "value": "1927-04 to 1927-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000319", + "multivalued": false, + "alias": "flooding", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "gaseous_environment": { + "name": "gaseous_environment", + "description": "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens", + "title": "gaseous environment", + "todos": [ + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override", + "would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value", + "did I do this right? keep the example that's provided and add another? so as to not override" + ], + "examples": [ + { + "value": "CO2; 500ppm above ambient; constant" + }, + { + "value": "nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 20, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000558", + "multivalued": false, + "alias": "gaseous_environment", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "growth_facil": { + "name": "growth_facil", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "free text or CO" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.", + "title": "growth facility", + "notes": [ + "Removed from description: Alternatively use Crop Ontology (CO) terms" + ], + "examples": [ + { + "value": "Growth chamber [CO_715:0000189]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "growth facility" + ], + "rank": 1, + "is_a": "core field", + "string_serialization": "{text}|{termLabel} {[termID]}", + "slot_uri": "MIXS:0001043", + "multivalued": false, + "alias": "growth_facil", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "GrowthFacilEnum", + "required": true + }, + "heavy_metals": { + "name": "heavy_metals", + "description": "Heavy metals present in the sample and their concentrations.", + "title": "heavy metals/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?", + "I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement." + ], + "notes": [ + "Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal.", + "Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal." + ], + "comments": [ + "For multiple heavy metals and concentrations, separate by ;" + ], + "examples": [ + { + "value": "mercury 0.09 micrograms per gram" + }, + { + "value": "mercury 0.09 ug/g; chromium 0.03 ug/g" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 17, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000652", + "multivalued": false, + "alias": "heavy_metals", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "heavy_metals_meth": { + "name": "heavy_metals_meth", + "description": "Reference or method used in determining heavy metals", + "title": "heavy metals method/ extreme unusual properties", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Required when heavy metals are provided", + "If different methods are used for multiple metals, indicate the metal and method. Separate metals by ;" + ], + "examples": [ + { + "value": "https://doi.org/10.3390/ijms9040434" + }, + { + "value": "mercury https://doi.org/10.1007/BF01056090; chromium https://doi.org/10.1007/s00216-006-0322-8" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 18, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000343", + "multivalued": false, + "alias": "heavy_metals_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "soil horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "humidity_regm": { + "name": "humidity_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "humidity value;treatment interval and duration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "humidity regimen", + "examples": [ + { + "value": "25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "humidity regimen" + ], + "rank": 21, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000568", + "multivalued": false, + "alias": "humidity_regm", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "isotope_exposure": { + "name": "isotope_exposure", + "description": "List isotope exposure or addition applied to your sample.", + "title": "isotope exposure/addition", + "todos": [ + "Can we make the H218O correctly super and subscripted?" + ], + "comments": [ + "This is required when your experimental design includes the use of isotopically labeled compounds" + ], + "examples": [ + { + "value": "13C glucose" + }, + { + "value": "H218O" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:chem_administration" + ], + "rank": 16, + "string_serialization": "{termLabel} {[termID]}; {timestamp}", + "multivalued": false, + "alias": "isotope_exposure", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]; ([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "lbc_thirty": { + "name": "lbc_thirty", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ppm CaCO3/pH" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "lime buffer capacity, determined after 30 minute incubation", + "title": "lime buffer capacity (at 30 minutes)", + "comments": [ + "This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit" + ], + "examples": [ + { + "value": "543 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0", + "https://secure.caes.uga.edu/extension/publications/files/pdf/C%20874_5.PDF" + ], + "aliases": [ + "lbc_thirty", + "lbc30", + "lime buffer capacity (at 30 minutes)" + ], + "rank": 1001, + "is_a": "attribute", + "multivalued": false, + "alias": "lbc_thirty", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "lbceq": { + "name": "lbceq", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "ppm CaCO3/pH" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "lime buffer capacity, determined at equilibrium after 5 day incubation", + "title": "lime buffer capacity (after 5 day incubation)", + "comments": [ + "This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit" + ], + "examples": [ + { + "value": "1575 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "lbceq", + "lime buffer capacity (at 5-day equilibrium)" + ], + "rank": 1002, + "is_a": "attribute", + "multivalued": false, + "alias": "lbceq", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "light_regm": { + "name": "light_regm", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "exposure type;light intensity;light quality" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux; micrometer, nanometer, angstrom" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Information about treatment(s) involving exposure to light, including both light intensity and quality.", + "title": "light regimen", + "examples": [ + { + "value": "incandescant light;10 lux;450 nanometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "light regimen" + ], + "rank": 24, + "is_a": "core field", + "string_serialization": "{text};{float} {unit};{float} {unit}", + "slot_uri": "MIXS:0000569", + "multivalued": false, + "alias": "light_regm", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "link_class_info": { + "name": "link_class_info", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Link to digitized soil maps or other soil classification information", + "title": "link to classification information", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "link to classification information" + ], + "rank": 20, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000329", + "multivalued": false, + "alias": "link_class_info", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" 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+ "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "alias": "phosphate", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "prev_land_use_meth": { + "name": "prev_land_use_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining previous land use and dates", + "title": "history/previous land use method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/previous land use method" + ], + "rank": 26, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000316", + "multivalued": false, + "alias": "prev_land_use_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "previous_land_use": { + "name": "previous_land_use", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "land use name;date" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Previous land use and dates", + "title": "history/previous land use", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/previous land use" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{text};{timestamp}", + "slot_uri": "MIXS:0000315", + "multivalued": false, + "alias": "previous_land_use", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^\\S+.*\\S+;([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "profile_position": { + "name": "profile_position", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas", + "title": "profile position", + "examples": [ + { + "value": "summit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "profile position" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0001084", + "multivalued": false, + "alias": "profile_position", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "profile_position_enum" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity_meth": { + "name": "salinity_meth", + "description": "Reference or method used in determining salinity", + "title": "salinity method", + "examples": [ + { + "value": "https://doi.org/10.1007/978-1-61779-986-0_28" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 55, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000341", + "multivalued": false, + "alias": "salinity_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "season_precpt": { + "name": "season_precpt", + "description": "The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.", + "title": "average seasonal precipitation", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "check validation & examples. always mm? so value only? Or value + unit", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "check validation & examples. always mm? so value only? Or value + unit" + ], + "notes": [ + "mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average", + "mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average" + ], + "comments": [ + "Seasons are defined as spring (March, April, May), summer (June, July, August), autumn (September, October, November) and winter (December, January, February)." + ], + "examples": [ + { + "value": "0.4 inch" + }, + { + "value": "10.16 mm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000645", + "multivalued": false, + "alias": "season_precpt", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "season_temp": { + "name": "season_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Mean seasonal temperature", + "title": "mean seasonal temperature", + "examples": [ + { + "value": "18 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean seasonal temperature" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000643", + "multivalued": false, + "alias": "season_temp", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sieving": { + "name": "sieving", + "description": "Collection design of pooled samples and/or sieve size and amount of sample sieved", + "title": "composite design/sieving", + "todos": [ + "check validation and examples", + "check validation and examples" + ], + "comments": [ + "Describe how samples were composited or sieved.", + "Use 'sample link' to indicate which samples were combined." + ], + "examples": [ + { + "value": "combined 2 cores" + }, + { + "value": "4mm sieved" + }, + { + "value": "4 mm sieved and homogenized" + }, + { + "value": "50 g" + }, + { + "value": "5 cores" + }, + { + "value": "2 mm sieved" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "core field", + "string_serialization": "{{text}|{float} {unit}};{float} {unit}", + "slot_uri": "MIXS:0000322", + "multivalued": false, + "alias": "sieving", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "size_frac_low": { + "name": "size_frac_low", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample", + "title": "size-fraction lower threshold", + "examples": [ + { + "value": "0.2 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size-fraction lower threshold" + ], + "rank": 10, + "is_a": "core field", + "slot_uri": "MIXS:0000735", + "multivalued": false, + "alias": "size_frac_low", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "size_frac_up": { + "name": "size_frac_up", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micrometer" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample", + "title": "size-fraction upper threshold", + "examples": [ + { + "value": "20 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size-fraction upper threshold" + ], + "rank": 11, + "is_a": "core field", + "slot_uri": "MIXS:0000736", + "multivalued": false, + "alias": "size_frac_up", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "slope_aspect": { + "name": "slope_aspect", + "description": "The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees). - This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration.", + "title": "slope aspect", + "todos": [ + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot" + ], + "comments": [ + "Aspect is the orientation of slope, measured clockwise in degrees from 0 to 360, where 0 is north-facing, 90 is east-facing, 180 is south-facing, and 270 is west-facing." + ], + "examples": [ + { + "value": "35" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000647", + "multivalued": false, + "alias": "slope_aspect", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "slope_gradient": { + "name": "slope_gradient", + "description": "Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer", + "title": "slope gradient", + "todos": [ + "Slope is a percent. How does the validation work? Check to correct examples", + "Slope is a percent. How does the validation work? Check to correct examples" + ], + "examples": [ + { + "value": "10%" + }, + { + "value": "10 %" + }, + { + "value": "0.1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 31, + "is_a": "core field", + "slot_uri": "MIXS:0000646", + "multivalued": false, + "alias": "slope_gradient", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "soil_horizon": { + "name": "soil_horizon", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath", + "title": "soil horizon", + "examples": [ + { + "value": "A horizon" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon" + ], + "rank": 32, + "is_a": "core field", + "slot_uri": "MIXS:0001082", + "multivalued": false, + "alias": "soil_horizon", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "soil_horizon_enum" + }, + "soil_text_measure": { + "name": "soil_text_measure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional.", + "title": "soil texture measurement", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil texture measurement" + ], + "rank": 33, + "is_a": "core field", + "slot_uri": "MIXS:0000335", + "multivalued": false, + "alias": "soil_text_measure", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "soil_texture_meth": { + "name": "soil_texture_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil texture", + "title": "soil texture method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil texture method" + ], + "rank": 34, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000336", + "multivalued": false, + "alias": "soil_texture_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "soil_type": { + "name": "soil_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "ENVO_00001998" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes.", + "title": "soil type", + "examples": [ + { + "value": "plinthosol [ENVO:00002250]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil type" + ], + "rank": 35, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000332", + "multivalued": false, + "alias": "soil_type", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "soil_type_meth": { + "name": "soil_type_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining soil series name or other lower-level classification", + "title": "soil type method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil type method" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000334", + "multivalued": false, + "alias": "soil_type_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "alias": "specific_ecosystem", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "SpecificEcosystemEnum", + "recommended": true + }, + "start_date_inc": { + "name": "start_date_inc", + "description": "Date the incubation was started. Only relevant for incubation samples.", + "title": "incubation start date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 4, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "alias": "start_date_inc", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "start_time_inc": { + "name": "start_time_inc", + "description": "Time the incubation was started. Only relevant for incubation samples.", + "title": "incubation start time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 5, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "start_time_inc", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "store_cond": { + "name": "store_cond", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "storage condition type;duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Explain how the soil sample is stored (fresh/frozen/other).", + "title": "storage conditions", + "examples": [ + { + "value": "-20 degree Celsius freezer;P2Y10D" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "storage conditions" + ], + "rank": 2, + "is_a": "core field", + "string_serialization": "{text};{duration}", + "slot_uri": "MIXS:0000327", + "multivalued": false, + "alias": "store_cond", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "StoreCondEnum", + "required": true + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tillage": { + "name": "tillage", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "enumeration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Note method(s) used for tilling", + "title": "history/tillage", + "examples": [ + { + "value": "chisel" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "history/tillage" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0001081", + "multivalued": true, + "alias": "tillage", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "tillage_enum" + }, + "tot_carb": { + "name": "tot_carb", + "description": "Total carbon content", + "title": "total carbon", + "todos": [ + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format", + "is this inorganic and organic? both? could use some clarification.", + "ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format" + ], + "examples": [ + { + "value": "1 ug/L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000525", + "multivalued": false, + "alias": "tot_carb", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro_cont_meth": { + "name": "tot_nitro_cont_meth", + "description": "Reference or method used in determining the total nitrogen", + "title": "total nitrogen content method", + "examples": [ + { + "value": "https://doi.org/10.2134/agronmonogr9.2.c32" + }, + { + "value": "https://acsess.onlinelibrary.wiley.com/doi/full/10.2136/sssaj2009.0389?casa_token=bm0pYIUdNMgAAAAA%3AOWVRR0STHaOe-afTcTdxn5m1hM8n2ltM0wY-b1iYpYdD9dhwppk5j3LvC2IO5yhOIvyLVeQz4NZRCZo" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 49, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000338", + "multivalued": false, + "alias": "tot_nitro_cont_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "tot_nitro_content": { + "name": "tot_nitro_content", + "description": "Total nitrogen content of the sample", + "title": "total nitrogen content", + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 48, + "is_a": "core field", + "slot_uri": "MIXS:0000530", + "multivalued": false, + "alias": "tot_nitro_content", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_org_c_meth": { + "name": "tot_org_c_meth", + "description": "Reference or method used in determining total organic carbon", + "title": "total organic carbon method", + "examples": [ + { + "value": "https://doi.org/10.1080/07352680902776556" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 51, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000337", + "multivalued": false, + "alias": "tot_org_c_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "tot_org_carb": { + "name": "tot_org_carb", + "description": "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content", + "title": "total organic carbon", + "todos": [ + "check description. How are they different?", + "check description. How are they different?" + ], + "examples": [ + { + "value": "5 mg N/ L" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 50, + "is_a": "core field", + "slot_uri": "MIXS:0000533", + "multivalued": false, + "alias": "tot_org_carb", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_phosp": { + "name": "tot_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus", + "title": "total phosphorus", + "examples": [ + { + "value": "0.03 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total phosphorus" + ], + "rank": 52, + "is_a": "core field", + "slot_uri": "MIXS:0000117", + "multivalued": false, + "alias": "tot_phosp", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_cont_soil_meth": { + "name": "water_cont_soil_meth", + "description": "Reference or method used in determining the water content of soil", + "title": "water content method", + "todos": [ + "Why is it soil water content method in the name but not the title? Is this slot used in other samples?", + "Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).", + "Should this be multi valued? How to we manage and validate this?", + "Why is it soil water content method in the name but not the title? Is this slot used in other samples?", + "Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).", + "Should this be multi valued? How to we manage and validate this?" + ], + "comments": [ + "Required if providing water content" + ], + "examples": [ + { + "value": "J. Nat. Prod. Plant Resour., 2012, 2 (4):500-503" + }, + { + "value": "https://dec.alaska.gov/applications/spar/webcalc/definitions.htm" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 40, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000323", + "multivalued": false, + "alias": "water_cont_soil_meth", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "water_content": { + "name": "water_content", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "string" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per gram or cubic centimeter per cubic centimeter" + } + }, + "description": "Water content measurement", + "title": "water content", + "todos": [ + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?", + "value in preferred unit is too limiting. need to change this", + "check and correct validation so examples are accepted", + "This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot", + "how to manage multiple water content methods?" + ], + "examples": [ + { + "value": "75%" + }, + { + "value": "75 %" + }, + { + "value": "0.75 g water/g dry soil" + }, + { + "value": "75% water holding capacity" + }, + { + "value": "1.1 g fresh weight/ dry weight" + }, + { + "value": "10% water filled pore space" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 39, + "is_a": "core field", + "string_serialization": "{float or pct} {unit}", + "slot_uri": "MIXS:0000185", + "multivalued": false, + "alias": "water_content", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\S.+$" + }, + "watering_regm": { + "name": "watering_regm", + "description": "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens", + "title": "watering regimen", + "examples": [ + { + "value": "1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M" + }, + { + "value": "75% water holding capacity; constant" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "string_serialization": "{float} {unit};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000591", + "multivalued": false, + "alias": "watering_regm", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "PlantAssociatedInterface", + "SoilInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "zinc": { + "name": "zinc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mg/kg (ppm)" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of zinc in the sample", + "title": "zinc", + "examples": [ + { + "value": "2.5 mg/kg" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://www.ornl.gov/content/bio-scales-0" + ], + "aliases": [ + "zinc" + ], + "rank": 1004, + "is_a": "attribute", + "multivalued": false, + "alias": "zinc", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "SoilInterface" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "SoilInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "WastewaterSludgeInterface": { + "name": "WastewaterSludgeInterface", + "description": "wastewater_sludge dh_interface", + "title": "Wastewater Sludge", + "from_schema": "https://example.com/nmdc_submission_schema", + "is_a": "DhInterface", + "mixins": [ + "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" + ], + "slots": [ + "alkalinity", + "biochem_oxygen_dem", + "chem_administration", + "chem_oxygen_dem", + "collection_date", + "depth", + "ecosystem", + "ecosystem_category", + "ecosystem_subtype", + "ecosystem_type", + "efficiency_percent", + "elev", + "emulsions", + "env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "gaseous_substances", + "geo_loc_name", + "horizon_meth", + "indust_eff_percent", + "inorg_particles", + "lat_lon", + "misc_param", + "nitrate", + "org_particles", + "organism_count", + "oxy_stat_samp", + "perturbation", + "ph", + "ph_meth", + "phosphate", + "pre_treatment", + "primary_treatment", + "reactor_type", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "secondary_treatment", + "sewage_type", + "size_frac", + "sludge_retent_time", + "sodium", + "soluble_inorg_mat", + "soluble_org_mat", + "specific_ecosystem", + "suspend_solids", + "temp", + "tertiary_treatment", + "tot_nitro", + "tot_phosphate", + "wastewater_type" + ], + "slot_usage": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "biochem_oxygen_dem": { + "name": "biochem_oxygen_dem", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period", + "title": "biochemical oxygen demand", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "biochemical oxygen demand" + ], + "rank": 296, + "is_a": "core field", + "slot_uri": "MIXS:0000653", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "chem_administration": { + "name": "chem_administration", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "CHEBI;timestamp" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi", + "title": "chemical administration", + "examples": [ + { + "value": "agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22" + }, + { + "value": "agar [CHEBI:2509];2018-05" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical administration" + ], + "rank": 17, + "is_a": "core field", + "string_serialization": "{termLabel} {[termID]};{timestamp}", + "slot_uri": "MIXS:0000751", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\];([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "chem_oxygen_dem": { + "name": "chem_oxygen_dem", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite", + "title": "chemical oxygen demand", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "chemical oxygen demand" + ], + "rank": 301, + "is_a": "core field", + "slot_uri": "MIXS:0000656", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "collection_date": { + "name": "collection_date", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "date and time" + } + }, + "description": "The date of sampling", + "title": "collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only", + "Use modified term (amended definition)" + ], + "examples": [ + { + "value": "2021-04-15" + }, + { + "value": "2021-04" + }, + { + "value": "2021" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "collection date" + ], + "rank": 3, + "is_a": "environment field", + "string_serialization": "{date, arbitrary precision}", + "slot_uri": "MIXS:0000011", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "depth": { + "name": "depth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + } + }, + "description": "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.", + "title": "depth, meters", + "notes": [ + "Use modified term" + ], + "comments": [ + "All depths must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "0 - 0.1" + }, + { + "value": "1" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "depth" + ], + "rank": 9, + "is_a": "environment field", + "string_serialization": "{float}|{float}-{float}", + "slot_uri": "MIXS:0000018", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?(\\s*-\\s*[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?)?$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "notes": [ + "range: string or EcosystemEnum? The enum could be dynamic or might be soil biased." + ], + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "efficiency_percent": { + "name": "efficiency_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of volatile solids removed from the anaerobic digestor", + "title": "efficiency percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "efficiency percent" + ], + "rank": 307, + "is_a": "core field", + "slot_uri": "MIXS:0000657", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "emulsions": { + "name": "emulsions", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "emulsion name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types", + "title": "emulsions", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "emulsions" + ], + "rank": 308, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000660", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "gaseous_substances": { + "name": "gaseous_substances", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gaseous substance name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances", + "title": "gaseous substances", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gaseous substances" + ], + "rank": 311, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000661", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "indust_eff_percent": { + "name": "indust_eff_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of industrial effluents received by wastewater treatment plant", + "title": "industrial effluent percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "industrial effluent percent" + ], + "rank": 332, + "is_a": "core field", + "slot_uri": "MIXS:0000662", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "inorg_particles": { + "name": "inorg_particles", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "inorganic particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles", + "title": "inorganic particles", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "inorganic particles" + ], + "rank": 333, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000664", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_particles": { + "name": "org_particles", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc.", + "title": "organic particles", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic particles" + ], + "rank": 338, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000665", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([-+]?[0-9]*\\.?[0-9]+ +\\S.*\\|)*([-+]?[0-9]*\\.?[0-9]+ +\\S.*)$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "notes": [ + "Use modified term" + ], + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "string_serialization": "{float}", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "recommended": true, + "minimum_value": 0, + "maximum_value": 14 + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pre_treatment": { + "name": "pre_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "pre-treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process of pre-treatment removes materials that can be easily collected from the raw wastewater", + "title": "pre-treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pre-treatment" + ], + "rank": 342, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000348", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "primary_treatment": { + "name": "primary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "primary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed", + "title": "primary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "primary treatment" + ], + "rank": 343, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000349", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "reactor_type": { + "name": "reactor_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "reactor type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage", + "title": "reactor type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "reactor type" + ], + "rank": 346, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000350", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "secondary_treatment": { + "name": "secondary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "secondary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process for substantially degrading the biological content of the sewage", + "title": "secondary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "secondary treatment" + ], + "rank": 360, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000351", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sewage_type": { + "name": "sewage_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "sewage type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of wastewater treatment plant as municipial or industrial", + "title": "sewage type", + 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They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "notes": [ + "string or EcosystemCategoryEnum range?" + ], + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "notes": [ + "string or EcosystemSubtypeEnum range?" + ], + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "notes": [ + "string or EcosystemTypeEnum range?" + ], + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "efficiency_percent": { + "name": "efficiency_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of volatile solids removed from the anaerobic digestor", + "title": "efficiency percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "efficiency percent" + ], + "rank": 307, + "is_a": "core field", + "slot_uri": "MIXS:0000657", + "multivalued": false, + "alias": "efficiency_percent", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "225" + }, + { + "value": "0" + }, + { + "value": "1250" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float", + "required": true + }, + "emulsions": { + "name": "emulsions", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "emulsion name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types", + "title": "emulsions", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "emulsions" + ], + "rank": 308, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000660", + "multivalued": false, + "alias": "emulsions", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html", + "title": "broad-scale environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "canopy [ENVO:00000047]" + }, + { + "value": "herb and fern layer [ENVO:01000337]" + }, + { + "value": "litter layer [ENVO:01000338]" + }, + { + "value": "understory [01000335]" + }, + { + "value": "shrub layer [ENVO:01000336]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "notes": [ + "range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)" + ], + "examples": [ + { + "value": "soil [ENVO:00001998]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:EFO_0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "gaseous_substances": { + "name": "gaseous_substances", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "gaseous substance name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances", + "title": "gaseous substances", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "gaseous substances" + ], + "rank": 311, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000661", + "multivalued": false, + "alias": "gaseous_substances", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{text}: {text}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "indust_eff_percent": { + "name": "indust_eff_percent", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Percentage of industrial effluents received by wastewater treatment plant", + "title": "industrial effluent percent", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "industrial effluent percent" + ], + "rank": 332, + "is_a": "core field", + "slot_uri": "MIXS:0000662", + "multivalued": false, + "alias": "indust_eff_percent", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "inorg_particles": { + "name": "inorg_particles", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "inorganic particle name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles", + "title": "inorganic particles", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "inorganic particles" + ], + "rank": 333, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000664", + "multivalued": false, + "alias": "inorg_particles", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?", + "This is currently a required field but it's not clear if this should be required for human hosts" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{lat lon}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?([1-8]?\\d(\\.\\d+)?|90(\\.0+)?)\\s[-+]?(180(\\.0+)?|((1[0-7]\\d)|([1-9]?\\d))(\\.\\d+)?)$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? 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While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "comments": [ + "Report dimensions and details when applicable" + ], + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "recommended": true + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "comments": [ + "This can be a citation or description" + ], + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "comments": [ + "This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis." + ], + "examples": [ + { + "value": "5 grams" + }, + { + "value": "10 mL" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float} {unit}", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "alias": "samp_store_dur", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "alias": "samp_store_loc", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which the sample was stored (degrees are assumed)", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "alias": "samp_store_temp", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true, + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true, + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "secondary_treatment": { + "name": "secondary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "secondary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process for substantially degrading the biological content of the sewage", + "title": "secondary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "secondary treatment" + ], + "rank": 360, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000351", + "multivalued": false, + "alias": "secondary_treatment", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sewage_type": { + "name": "sewage_type", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "sewage type name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Type of wastewater treatment plant as municipial or industrial", + "title": "sewage type", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sewage type" + ], + "rank": 361, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000215", + "multivalued": false, + "alias": "sewage_type", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "size_frac": { + "name": "size_frac", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "filter size value range" + } + }, + "description": "Filtering pore size used in sample preparation", + "title": "size fraction selected", + "examples": [ + { + "value": "0-0.22 micrometer" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "size fraction selected" + ], + "rank": 285, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{float}-{float} {unit}", + "slot_uri": "MIXS:0000017", + "multivalued": false, + "alias": "size_frac", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "sludge_retent_time": { + "name": "sludge_retent_time", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "hours" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The time activated sludge remains in reactor", + "title": "sludge retention time", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sludge retention time" + ], + "rank": 362, + "is_a": "core field", + "slot_uri": "MIXS:0000669", + "multivalued": false, + "alias": "sludge_retent_time", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sodium": { + "name": "sodium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Sodium concentration in the sample", + "title": "sodium", + "examples": [ + { + "value": "10.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sodium" + ], + "rank": 363, + "is_a": "core field", + "slot_uri": "MIXS:0000428", + "multivalued": false, + "alias": "sodium", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "soluble_inorg_mat": { + "name": "soluble_inorg_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "soluble inorganic material name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc.", + "title": "soluble inorganic material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soluble inorganic material" + ], + "rank": 364, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000672", + "multivalued": false, + "alias": "soluble_inorg_mat", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "soluble_org_mat": { + "name": "soluble_org_mat", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "soluble organic material name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, mole per liter, gram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc.", + "title": "soluble organic material", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soluble organic material" + ], + "rank": 365, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000673", + "multivalued": false, + "alias": "soluble_org_mat", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "specific_ecosystem": { + "name": "specific_ecosystem", + "description": "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.", + "notes": [ + "string or SpecificEcosystemEnum range?" + ], + "comments": [ + "Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 13, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "specific_ecosystem", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "suspend_solids": { + "name": "suspend_solids", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "suspended solid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances", + "title": "suspended solids", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "suspended solids" + ], + "rank": 372, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000150", + "multivalued": false, + "alias": "suspend_solids", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "temp": { + "name": "temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + } + }, + "description": "Temperature of the sample at the time of sampling.", + "title": "temperature", + "examples": [ + { + "value": "25 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "temperature" + ], + "rank": 37, + "is_a": "environment field", + "slot_uri": "MIXS:0000113", + "multivalued": false, + "alias": "temp", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tertiary_treatment": { + "name": "tertiary_treatment", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "tertiary treatment type" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment", + "title": "tertiary treatment", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "tertiary treatment" + ], + "rank": 374, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000352", + "multivalued": false, + "alias": "tertiary_treatment", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "WastewaterSludgeInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. 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Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "WastewaterSludgeInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + 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"env_broad_scale", + "env_local_scale", + "env_medium", + "env_package", + "experimental_factor", + "fluor", + "geo_loc_name", + "glucosidase_act", + "horizon_meth", + "lat_lon", + "light_intensity", + "mean_frict_vel", + "mean_peak_frict_vel", + "misc_param", + "n_alkanes", + "nitrate", + "nitrite", + "nitro", + "org_carb", + "org_matter", + "org_nitro", + "organism_count", + "oxy_stat_samp", + "part_org_carb", + "part_org_nitro", + "perturbation", + "petroleum_hydrocarb", + "ph", + "ph_meth", + "phaeopigments", + "phosphate", + "phosplipid_fatt_acid", + "photon_flux", + "potassium", + "pressure", + "primary_prod", + "redox_potential", + "salinity", + "samp_collec_device", + "samp_collec_method", + "samp_mat_process", + "samp_size", + "samp_store_dur", + "samp_store_loc", + "samp_store_temp", + "sample_link", + "silicate", + "size_frac", + "size_frac_low", + "size_frac_up", + "sodium", + "soluble_react_phosp", + "specific_ecosystem", + "sulfate", + "sulfide", + "suspend_part_matter", + "temp", + "tidal_stage", + "tot_depth_water_col", + "tot_diss_nitro", + "tot_inorg_nitro", + "tot_nitro", + "tot_part_carb", + "turbidity", + "water_current" + ], + "slot_usage": { + "alkalinity": { + "name": "alkalinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milliequivalent per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate", + "title": "alkalinity", + "examples": [ + { + "value": "50 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkalinity" + ], + "rank": 1, + "is_a": "core field", + "slot_uri": "MIXS:0000421", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + 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"HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "alkyl_diethers": { + "name": "alkyl_diethers", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of alkyl diethers", + "title": "alkyl diethers", + "examples": [ + { + "value": "0.005 mole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "alkyl diethers" + ], + "rank": 2, + "is_a": "core field", + "slot_uri": "MIXS:0000490", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + 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+ "ammonium": { + "name": "ammonium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of ammonium in the sample", + "title": "ammonium", + "examples": [ + { + "value": "1.5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "ammonium" + ], + "rank": 4, + "is_a": "core field", + "slot_uri": "MIXS:0000427", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": 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false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "down_par": { + "name": "down_par", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microEinstein per square meter per second, microEinstein per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Visible waveband radiance and irradiance measurements in the water column", + "title": "downward PAR", + "examples": [ + { + "value": "28.71 microEinstein per square meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "downward PAR" + ], + "rank": 225, + "is_a": "core field", + "slot_uri": "MIXS:0000703", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS", + "title": "broad-scale environmental context", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fluor": { + "name": "fluor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram chlorophyll a per cubic meter, volts" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Raw or converted fluorescence of water", + "title": "fluorescence", + "examples": [ + { + "value": "2.5 volts" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fluorescence" + ], + "rank": 226, + "is_a": "core field", + "slot_uri": "MIXS:0000704", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{term}: {term}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + "is_a": "core field", + "slot_uri": "MIXS:0000137", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "soil horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + 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[^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "photon_flux": { + "name": "photon_flux", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of photons per second per unit area" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of photon flux", + "title": "photon flux", + "examples": [ + { + "value": "3.926 micromole photons per second per square meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "photon flux" + ], + "rank": 229, + "is_a": "core field", + "slot_uri": "MIXS:0000725", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "primary_prod": { + "name": "primary_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter per day, gram per square meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of primary production, generally measured as isotope uptake", + "title": "primary production", + "examples": [ + { + "value": "100 milligram per cubic meter per day" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "primary production" + ], + "rank": 230, + "is_a": "core field", + "slot_uri": "MIXS:0000728", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "redox_potential": { + "name": "redox_potential", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millivolt" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential", + "title": "redox potential", + "examples": [ + { + "value": "300 millivolt" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "redox potential" + ], + "rank": 40, + "is_a": "core field", + "slot_uri": "MIXS:0000182", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "examples": [ + { + "value": "5 liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage duration" + ], + "rank": 353, + "is_a": "core field", + "string_serialization": "{duration}", + "slot_uri": "MIXS:0000116", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_loc": { + "name": "samp_store_loc", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "location name" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Location at which sample was stored, usually name of a specific freezer/room", + "title": "sample storage location", + "examples": [ + { + "value": "Freezer no:5" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage location" + ], + "rank": 41, + "is_a": "core field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000755", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "samp_store_temp": { + "name": "samp_store_temp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "degree Celsius" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Temperature at which sample was stored, e.g. -80 degree Celsius", + "title": "sample storage temperature", + "examples": [ + { + "value": "-80 degree Celsius" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample storage temperature" + ], + "rank": 7, + "is_a": "core field", + "slot_uri": "MIXS:0000110", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "notes": [ + "also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: 'list' object has no attribute 'keys'" + ], + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. 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[^;\\t\\r\\x0A]+)$" + }, + "diss_carb_dioxide": { + "name": "diss_carb_dioxide", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample", + "title": "dissolved carbon dioxide", + "examples": [ + { + "value": "5 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved carbon dioxide" + ], + "rank": 14, + "is_a": "core field", + "slot_uri": "MIXS:0000436", + "multivalued": false, + "alias": "diss_carb_dioxide", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_hydrogen": { + "name": "diss_hydrogen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved hydrogen", + "title": "dissolved hydrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved hydrogen" + ], + "rank": 15, + "is_a": "core field", + "slot_uri": "MIXS:0000179", + "multivalued": false, + "alias": "diss_hydrogen", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_carb": { + "name": "diss_inorg_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter", + "title": "dissolved inorganic carbon", + "examples": [ + { + "value": "2059 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic carbon" + ], + "rank": 16, + "is_a": "core field", + "slot_uri": "MIXS:0000434", + "multivalued": false, + "alias": "diss_inorg_carb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_nitro": { + "name": "diss_inorg_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved inorganic nitrogen", + "title": "dissolved inorganic nitrogen", + "examples": [ + { + "value": "761 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic nitrogen" + ], + "rank": 223, + "is_a": "core field", + "slot_uri": "MIXS:0000698", + "multivalued": false, + "alias": "diss_inorg_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_inorg_phosp": { + "name": "diss_inorg_phosp", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved inorganic phosphorus in the sample", + "title": "dissolved inorganic phosphorus", + "examples": [ + { + "value": "56.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved inorganic phosphorus" + ], + "rank": 224, + "is_a": "core field", + "slot_uri": "MIXS:0000106", + "multivalued": false, + "alias": "diss_inorg_phosp", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_carb": { + "name": "diss_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid", + "title": "dissolved organic carbon", + "examples": [ + { + "value": "197 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic carbon" + ], + "rank": 17, + "is_a": "core field", + "slot_uri": "MIXS:0000433", + "multivalued": false, + "alias": "diss_org_carb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_org_nitro": { + "name": "diss_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2", + "title": "dissolved organic nitrogen", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved organic nitrogen" + ], + "rank": 18, + "is_a": "core field", + "slot_uri": "MIXS:0000162", + "multivalued": false, + "alias": "diss_org_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "diss_oxygen": { + "name": "diss_oxygen", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per kilogram, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of dissolved oxygen", + "title": "dissolved oxygen", + "examples": [ + { + "value": "175 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "dissolved oxygen" + ], + "rank": 19, + "is_a": "core field", + "slot_uri": "MIXS:0000119", + "multivalued": false, + "alias": "diss_oxygen", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "down_par": { + "name": "down_par", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microEinstein per square meter per second, microEinstein per square centimeter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Visible waveband radiance and irradiance measurements in the water column", + "title": "downward PAR", + "examples": [ + { + "value": "28.71 microEinstein per square meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "downward PAR" + ], + "rank": 225, + "is_a": "core field", + "slot_uri": "MIXS:0000703", + "multivalued": false, + "alias": "down_par", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ecosystem": { + "name": "ecosystem", + "description": "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.", + "comments": [ + "The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 9, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_category": { + "name": "ecosystem_category", + "description": "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.", + "comments": [ + "The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 10, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_category", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_subtype": { + "name": "ecosystem_subtype", + "description": "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.", + "comments": [ + "Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 12, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_subtype", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "ecosystem_type": { + "name": "ecosystem_type", + "description": "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.", + "comments": [ + "The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "https://gold.jgi.doe.gov/help" + ], + "rank": 11, + "is_a": "gold_path_field", + "multivalued": false, + "alias": "ecosystem_type", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "Study", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "recommended": true + }, + "elev": { + "name": "elev", + "description": "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.", + "title": "elevation, meters", + "comments": [ + "All elevations must be reported in meters. Provide the numerical portion only." + ], + "examples": [ + { + "value": "100" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "slot_uri": "MIXS:0000093", + "multivalued": false, + "alias": "elev", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "float" + }, + "env_broad_scale": { + "name": "env_broad_scale", + "description": "Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS", + "title": "broad-scale environmental context", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 6, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000012", + "multivalued": false, + "alias": "env_broad_scale", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_local_scale": { + "name": "env_local_scale", + "description": "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.", + "title": "local environmental context", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 7, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000013", + "multivalued": false, + "alias": "env_local_scale", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_medium": { + "name": "env_medium", + "description": "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).", + "title": "environmental medium", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 8, + "is_a": "environment field", + "string_serialization": "{termLabel} {[termID]}", + "slot_uri": "MIXS:0000014", + "multivalued": false, + "alias": "env_medium", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$" + }, + "env_package": { + "name": "env_package", + "description": "Select the MIxS enviromental package that best describes the environment from which your sample was collected.", + "title": "environmental package", + "examples": [ + { + "value": "soil" + } + ], + "in_subset": [ + "mixs extension" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "environmental package" + ], + "rank": 4, + "is_a": "attribute", + "multivalued": false, + "alias": "env_package", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "experimental_factor": { + "name": "experimental_factor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text or EFO and/or OBI" + } + }, + "description": "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI", + "title": "experimental factor", + "examples": [ + { + "value": "time series design [EFO:0001779]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "experimental factor" + ], + "rank": 12, + "is_a": "investigation field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000008", + "multivalued": false, + "alias": "experimental_factor", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "fluor": { + "name": "fluor", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram chlorophyll a per cubic meter, volts" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Raw or converted fluorescence of water", + "title": "fluorescence", + "examples": [ + { + "value": "2.5 volts" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "fluorescence" + ], + "rank": 226, + "is_a": "core field", + "slot_uri": "MIXS:0000704", + "multivalued": false, + "alias": "fluor", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "geo_loc_name": { + "name": "geo_loc_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "country or sea name (INSDC or GAZ): region(GAZ), specific location name" + } + }, + "description": "The geographical origin of the sample as defined by the country or sea name followed by specific region name.", + "title": "geographic location (country and/or sea,region)", + "examples": [ + { + "value": "USA: Maryland, Bethesda" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "geographic location (country and/or sea,region)" + ], + "rank": 4, + "is_a": "environment field", + "string_serialization": "{term}: {term}, {text}", + "slot_uri": "MIXS:0000010", + "multivalued": false, + "alias": "geo_loc_name", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "required": true + }, + "glucosidase_act": { + "name": "glucosidase_act", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mol per liter per hour" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of glucosidase activity", + "title": "glucosidase activity", + "examples": [ + { + "value": "5 mol per liter per hour" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "glucosidase activity" + ], + "rank": 20, + "is_a": "core field", + "slot_uri": "MIXS:0000137", + "multivalued": false, + "alias": "glucosidase_act", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "horizon_meth": { + "name": "horizon_meth", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI or url" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Reference or method used in determining the horizon", + "title": "soil horizon method", + "examples": [ + { + "value": "" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "soil horizon method" + ], + "rank": 19, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0000321", + "multivalued": false, + "alias": "horizon_meth", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "lat_lon": { + "name": "lat_lon", + "description": "This is currently a required field but it's not clear if this should be required for human hosts", + "title": "geographic location (latitude and longitude)", + "notes": [ + "required where?" + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 5, + "is_a": "environment field", + "string_serialization": "{float} {float}", + "slot_uri": "MIXS:0000009", + "multivalued": false, + "alias": "lat_lon", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)?$" + }, + "light_intensity": { + "name": "light_intensity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "lux" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of light intensity", + "title": "light intensity", + "examples": [ + { + "value": "0.3 lux" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "light intensity" + ], + "rank": 227, + "is_a": "core field", + "slot_uri": "MIXS:0000706", + "multivalued": false, + "alias": "light_intensity", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_frict_vel": { + "name": "mean_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean friction velocity", + "title": "mean friction velocity", + "examples": [ + { + "value": "0.5 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean friction velocity" + ], + "rank": 22, + "is_a": "core field", + "slot_uri": "MIXS:0000498", + "multivalued": false, + "alias": "mean_frict_vel", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "mean_peak_frict_vel": { + "name": "mean_peak_frict_vel", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "meter per second" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of mean peak friction velocity", + "title": "mean peak friction velocity", + "examples": [ + { + "value": "1 meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "mean peak friction velocity" + ], + "rank": 23, + "is_a": "core field", + "slot_uri": "MIXS:0000502", + "multivalued": false, + "alias": "mean_peak_frict_vel", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "misc_param": { + "name": "misc_param", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "parameter name;measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Any other measurement performed or parameter collected, that is not listed here", + "title": "miscellaneous parameter", + "examples": [ + { + "value": "Bicarbonate ion concentration;2075 micromole per kilogram" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "miscellaneous parameter" + ], + "rank": 23, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000752", + "multivalued": false, + "alias": "misc_param", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "n_alkanes": { + "name": "n_alkanes", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "n-alkane name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of n-alkanes; can include multiple n-alkanes", + "title": "n-alkanes", + "examples": [ + { + "value": "n-hexadecane;100 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "n-alkanes" + ], + "rank": 25, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000503", + "multivalued": false, + "alias": "n_alkanes", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "nitrate": { + "name": "nitrate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrate in the sample", + "title": "nitrate", + "examples": [ + { + "value": "65 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrate" + ], + "rank": 26, + "is_a": "core field", + "slot_uri": "MIXS:0000425", + "multivalued": false, + "alias": "nitrate", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitrite": { + "name": "nitrite", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter, milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrite in the sample", + "title": "nitrite", + "examples": [ + { + "value": "0.5 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrite" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0000426", + "multivalued": false, + "alias": "nitrite", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "nitro": { + "name": "nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of nitrogen (total)", + "title": "nitrogen", + "examples": [ + { + "value": "4.2 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "nitrogen" + ], + "rank": 28, + "is_a": "core field", + "slot_uri": "MIXS:0000504", + "multivalued": false, + "alias": "nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_carb": { + "name": "org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic carbon", + "title": "organic carbon", + "examples": [ + { + "value": "1.5 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic carbon" + ], + "rank": 29, + "is_a": "core field", + "slot_uri": "MIXS:0000508", + "multivalued": false, + "alias": "org_carb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_matter": { + "name": "org_matter", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic matter", + "title": "organic matter", + "examples": [ + { + "value": "1.75 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic matter" + ], + "rank": 45, + "is_a": "core field", + "slot_uri": "MIXS:0000204", + "multivalued": false, + "alias": "org_matter", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "org_nitro": { + "name": "org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of organic nitrogen", + "title": "organic nitrogen", + "examples": [ + { + "value": "4 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organic nitrogen" + ], + "rank": 46, + "is_a": "core field", + "slot_uri": "MIXS:0000205", + "multivalued": false, + "alias": "org_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "organism_count": { + "name": "organism_count", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "organism name;measurement value;enumeration" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)", + "title": "organism count", + "examples": [ + { + "value": "total prokaryotes;3.5e7 cells per milliliter;qPCR" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "organism count" + ], + "rank": 30, + "is_a": "core field", + "slot_uri": "MIXS:0000103", + "multivalued": false, + "alias": "organism_count", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^(\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+.*\\S+;(qPCR|ATP|MPN|other)\\|)*(\\S+.*\\S+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+.*\\S+;(qPCR|ATP|MPN|other))$" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "description": "Oxygenation status of sample", + "title": "oxygenation status of sample", + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 25, + "is_a": "core field", + "slot_uri": "MIXS:0000753", + "multivalued": false, + "alias": "oxy_stat_samp", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "OxyStatSampEnum" + }, + "part_org_carb": { + "name": "part_org_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of particulate organic carbon", + "title": "particulate organic carbon", + "examples": [ + { + "value": "1.92 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "particulate organic carbon" + ], + "rank": 31, + "is_a": "core field", + "slot_uri": "MIXS:0000515", + "multivalued": false, + "alias": "part_org_carb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "part_org_nitro": { + "name": "part_org_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of particulate organic nitrogen", + "title": "particulate organic nitrogen", + "examples": [ + { + "value": "0.3 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "particulate organic nitrogen" + ], + "rank": 228, + "is_a": "core field", + "slot_uri": "MIXS:0000719", + "multivalued": false, + "alias": "part_org_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "perturbation": { + "name": "perturbation", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "perturbation type name;perturbation interval and duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types", + "title": "perturbation", + "examples": [ + { + "value": "antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "perturbation" + ], + "rank": 33, + "is_a": "core field", + "string_serialization": "{text};{Rn/start_time/end_time/duration}", + "slot_uri": "MIXS:0000754", + "multivalued": false, + "alias": "perturbation", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string" + }, + "petroleum_hydrocarb": { + "name": "petroleum_hydrocarb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of petroleum hydrocarbon", + "title": "petroleum hydrocarbon", + "examples": [ + { + "value": "0.05 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "petroleum hydrocarbon" + ], + "rank": 34, + "is_a": "core field", + "slot_uri": "MIXS:0000516", + "multivalued": false, + "alias": "petroleum_hydrocarb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "ph": { + "name": "ph", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid", + "title": "pH", + "examples": [ + { + "value": "7.2" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pH" + ], + "rank": 27, + "is_a": "core field", + "slot_uri": "MIXS:0001001", + "multivalued": false, + "alias": "ph", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "double" + }, + "ph_meth": { + "name": "ph_meth", + "description": "Reference or method used in determining ph", + "title": "pH method", + "comments": [ + "This can include a link to the instrument used or a citation for the method." + ], + "examples": [ + { + "value": "https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB" + }, + { + "value": "https://doi.org/10.2136/sssabookser5.3.c16" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 41, + "is_a": "core field", + "string_serialization": "{PMID}|{DOI}|{URL}", + "slot_uri": "MIXS:0001106", + "multivalued": false, + "alias": "ph_meth", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string" + }, + "phaeopigments": { + "name": "phaeopigments", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phaeopigment name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phaeopigments; can include multiple phaeopigments", + "title": "phaeopigments", + "examples": [ + { + "value": "2.5 milligram per cubic meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phaeopigments" + ], + "rank": 35, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000180", + "multivalued": false, + "alias": "phaeopigments", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "phosphate": { + "name": "phosphate", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of phosphate", + "title": "phosphate", + "examples": [ + { + "value": "0.7 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phosphate" + ], + "rank": 53, + "is_a": "core field", + "slot_uri": "MIXS:0000505", + "multivalued": false, + "alias": "phosphate", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "phosplipid_fatt_acid": { + "name": "phosplipid_fatt_acid", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "phospholipid fatty acid name;measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "mole per gram, mole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "m" + } + }, + "description": "Concentration of phospholipid fatty acids; can include multiple values", + "title": "phospholipid fatty acid", + "examples": [ + { + "value": "2.98 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "phospholipid fatty acid" + ], + "rank": 36, + "is_a": "core field", + "string_serialization": "{text};{float} {unit}", + "slot_uri": "MIXS:0000181", + "multivalued": false, + "alias": "phosplipid_fatt_acid", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+\\|)*([^;\\t\\r\\x0A]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A]+)$" + }, + "photon_flux": { + "name": "photon_flux", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "number of photons per second per unit area" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of photon flux", + "title": "photon flux", + "examples": [ + { + "value": "3.926 micromole photons per second per square meter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "photon flux" + ], + "rank": 229, + "is_a": "core field", + "slot_uri": "MIXS:0000725", + "multivalued": false, + "alias": "photon_flux", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "potassium": { + "name": "potassium", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per liter, parts per million" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Concentration of potassium in the sample", + "title": "potassium", + "examples": [ + { + "value": "463 milligram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "potassium" + ], + "rank": 38, + "is_a": "core field", + "slot_uri": "MIXS:0000430", + "multivalued": false, + "alias": "potassium", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "pressure": { + "name": "pressure", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "atmosphere" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Pressure to which the sample is subject to, in atmospheres", + "title": "pressure", + "examples": [ + { + "value": "50 atmosphere" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "pressure" + ], + "rank": 39, + "is_a": "core field", + "slot_uri": "MIXS:0000412", + "multivalued": false, + "alias": "pressure", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "MiscEnvsInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "primary_prod": { + "name": "primary_prod", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "milligram per cubic meter per day, gram per square meter per day" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of primary production, generally measured as isotope uptake", + "title": "primary production", + "examples": [ + { + "value": "100 milligram per cubic meter per day" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "primary production" + ], + "rank": 230, + "is_a": "core field", + "slot_uri": "MIXS:0000728", + "multivalued": false, + "alias": "primary_prod", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "redox_potential": { + "name": "redox_potential", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millivolt" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential", + "title": "redox potential", + "examples": [ + { + "value": "300 millivolt" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "redox potential" + ], + "rank": 40, + "is_a": "core field", + "slot_uri": "MIXS:0000182", + "multivalued": false, + "alias": "redox_potential", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "salinity": { + "name": "salinity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "practical salinity unit, percentage" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.", + "title": "salinity", + "examples": [ + { + "value": "25 practical salinity unit" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "salinity" + ], + "rank": 54, + "is_a": "core field", + "slot_uri": "MIXS:0000183", + "multivalued": false, + "alias": "salinity", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_collec_device": { + "name": "samp_collec_device", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "device name" + } + }, + "description": "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).", + "title": "sample collection device", + "examples": [ + { + "value": "swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection device" + ], + "rank": 14, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{termLabel} {[termID]}|{text}", + "slot_uri": "MIXS:0000002", + "multivalued": false, + "alias": "samp_collec_device", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_collec_method": { + "name": "samp_collec_method", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "PMID,DOI,url , or text" + } + }, + "description": "The method employed for collecting the sample.", + "title": "sample collection method", + "examples": [ + { + "value": "swabbing" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample collection method" + ], + "rank": 15, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{PMID}|{DOI}|{URL}|{text}", + "slot_uri": "MIXS:0001225", + "multivalued": false, + "alias": "samp_collec_method", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_mat_process": { + "name": "samp_mat_process", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.", + "title": "sample material processing", + "examples": [ + { + "value": "filtering of seawater" + }, + { + "value": "storing samples in ethanol" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample material processing" + ], + "rank": 12, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0000016", + "multivalued": false, + "alias": "samp_mat_process", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string" + }, + "samp_size": { + "name": "samp_size", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "millliter, gram, milligram, liter" + } + }, + "description": "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.", + "title": "amount or size of sample collected", + "examples": [ + { + "value": "5 liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "amount or size of sample collected" + ], + "rank": 18, + "is_a": "nucleic acid sequence source field", + "slot_uri": "MIXS:0000001", + "multivalued": false, + "alias": "samp_size", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "AirInterface", + "BiofilmInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_modified_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "samp_store_dur": { + "name": "samp_store_dur", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "duration" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Duration for which the sample was stored", + "title": "sample storage duration", + "examples": [ + { + "value": "P1Y6M" + } + ], + "from_schema": 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"measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total inorganic nitrogen content", + "title": "total inorganic nitrogen", + "examples": [ + { + "value": "40 microgram per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total inorganic nitrogen" + ], + "rank": 234, + "is_a": "core field", + "slot_uri": "MIXS:0000745", + "multivalued": false, + "alias": "tot_inorg_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_nitro": { + "name": "tot_nitro", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter, milligram per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen", + "title": "total nitrogen concentration", + "examples": [ + { + "value": "50 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total nitrogen concentration" + ], + "rank": 377, + "is_a": "core field", + "slot_uri": "MIXS:0000102", + "multivalued": false, + "alias": "tot_nitro", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "tot_part_carb": { + "name": "tot_part_carb", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "microgram per liter, micromole per liter" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Total particulate carbon content", + "title": "total particulate carbon", + "examples": [ + { + "value": "35 micromole per liter" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "total particulate carbon" + ], + "rank": 235, + "is_a": "core field", + "slot_uri": "MIXS:0000747", + "multivalued": false, + "alias": "tot_part_carb", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "turbidity": { + "name": "turbidity", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "formazin turbidity unit, formazin nephelometric units" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measure of the amount of cloudiness or haziness in water caused by individual particles", + "title": "turbidity", + "examples": [ + { + "value": "0.3 nephelometric turbidity units" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "turbidity" + ], + "rank": 47, + "is_a": "core field", + "slot_uri": "MIXS:0000191", + "multivalued": false, + "alias": "turbidity", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "BiofilmInterface", + "SedimentInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "water_current": { + "name": "water_current", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "measurement value" + }, + "preferred_unit": { + "tag": "preferred_unit", + "value": "cubic meter per second, knots" + }, + "occurrence": { + "tag": "occurrence", + "value": "1" + } + }, + "description": "Measurement of magnitude and direction of flow within a fluid", + "title": "water current", + "examples": [ + { + "value": "10 cubic meter per second" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "water current" + ], + "rank": 236, + "is_a": "core field", + "slot_uri": "MIXS:0000203", + "multivalued": false, + "alias": "water_current", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "MiscEnvsInterface", + "WaterInterface" + ], + "slot_group": "mixs_core_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+ +\\S.*$" + }, + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "WaterInterface", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "DhMultiviewCommonColumnsMixin": { + "name": "DhMultiviewCommonColumnsMixin", + "description": "Mixin with DhMutliviewCommon Columns", + "title": "Dh Mutliview Common Columns", + "from_schema": "https://example.com/nmdc_submission_schema", + "mixin": true, + "slots": [ + "analysis_type", + "samp_name", + "source_mat_id" + ], + "slot_usage": { + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + }, + "oxy_stat_samp": { + "name": "oxy_stat_samp", + "range": "OxyStatSampEnum" + } + }, + "attributes": { + "analysis_type": { + "name": "analysis_type", + "description": "Select all the data types associated or available for this biosample", + "title": "analysis/data type", + "examples": [ + { + "value": "metagenomics; metabolomics; proteomics" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:investigation_type" + ], + "rank": 3, + "multivalued": true, + "alias": "analysis_type", + "owner": "DhMultiviewCommonColumnsMixin", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "analysis_type_enum", + "required": true, + "recommended": true + }, + "samp_name": { + "name": "samp_name", + "annotations": { + "expected_value": { + "tag": "expected_value", + "value": "text" + } + }, + "description": "A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.", + "title": "sample name", + "comments": [ + "It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible." + ], + "examples": [ + { + "value": "Rock core CB1178(5-6) from NSW" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "aliases": [ + "sample name" + ], + "rank": 1, + "is_a": "investigation field", + "string_serialization": "{text}", + "slot_uri": "MIXS:0001107", + "multivalued": false, + "identifier": true, + "alias": "samp_name", + "owner": "DhMultiviewCommonColumnsMixin", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "required": true + }, + "source_mat_id": { + "name": "source_mat_id", + "description": "A globally unique identifier assigned to the biological sample.", + "title": "source material identifier", + "todos": [ + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.", + "Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID." + ], + "notes": [ + "The source material IS the Globally Unique ID" + ], + "comments": [ + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).", + "Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/)." + ], + "examples": [ + { + "value": "IGSN:AU1243" + }, + { + "value": "UUID:24f1467a-40f4-11ed-b878-0242ac120002" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "rank": 2, + "is_a": "nucleic acid sequence source field", + "string_serialization": "{text}:{text}", + "slot_uri": "MIXS:0000026", + "multivalued": false, + "alias": "source_mat_id", + "owner": "DhMultiviewCommonColumnsMixin", + "domain_of": [ + "Biosample", + "DhMultiviewCommonColumnsMixin", + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "EmslInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "JgiMgInterface", + "JgiMtInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface" + ], + "slot_group": "sample_id_section", + "range": "string", + "pattern": "[^\\:\\n\\r]+\\:[^\\:\\n\\r]+" + } + } + }, + "SampIdNewTermsMixin": { + "name": "SampIdNewTermsMixin", + "description": "Mixin with SampIdNew Terms", + "title": "SampId New Terms", + "from_schema": "https://example.com/nmdc_submission_schema", + "mixin": true, + "slots": [ + "sample_link" + ], + "attributes": { + "sample_link": { + "name": "sample_link", + "description": "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.", + "title": "sample linkage", + "comments": [ + "This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)" + ], + "examples": [ + { + "value": "IGSN:DSJ0284" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "rank": 5, + "string_serialization": "{text}:{text}", + "multivalued": false, + "alias": "sample_link", + "owner": "SampIdNewTermsMixin", + "domain_of": [ + "AirInterface", + "BiofilmInterface", + "BuiltEnvInterface", + "HcrCoresInterface", + "HcrFluidsSwabsInterface", + "HostAssociatedInterface", + "MiscEnvsInterface", + "PlantAssociatedInterface", + "SedimentInterface", + "SoilInterface", + "WastewaterSludgeInterface", + "WaterInterface", + "SampIdNewTermsMixin" + ], + "slot_group": "Sample ID", + "range": "string", + "recommended": true + } + } + }, + "SoilMixsInspiredMixin": { + "name": "SoilMixsInspiredMixin", + "description": "Mixin with SoilMixsInspired Terms", + "title": "Soil MIxS Inspired Mixin", + "from_schema": "https://example.com/nmdc_submission_schema", + "mixin": true, + "slots": [ + "collection_date_inc", + "collection_time", + "collection_time_inc", + "experimental_factor_other", + "filter_method", + "isotope_exposure", + "micro_biomass_c_meth", + "micro_biomass_n_meth", + "microbial_biomass_c", + "microbial_biomass_n", + "non_microb_biomass", + "non_microb_biomass_method", + "org_nitro_method", + "other_treatment", + "start_date_inc", + "start_time_inc", + "collection_date_inc", + "collection_time", + "collection_time_inc", + "experimental_factor_other", + "filter_method", + "isotope_exposure", + "micro_biomass_c_meth", + "micro_biomass_n_meth", + "microbial_biomass_c", + "microbial_biomass_n", + "non_microb_biomass", + "non_microb_biomass_method", + "org_nitro_method", + "other_treatment", + "start_date_inc", + "start_time_inc" + ], + "slot_usage": { + "collection_date_inc": { + "name": "collection_date_inc", + "description": "Date the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 2, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "collection_time": { + "name": "collection_time", + "description": "The time of sampling, either as an instance (single point) or interval.", + "title": "collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 1, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "collection_time_inc": { + "name": "collection_time_inc", + "description": "Time the incubation was harvested/collected/ended. Only relevant for incubation samples.", + "title": "incubation collection time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 3, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "experimental_factor_other": { + "name": "experimental_factor_other", + "description": "Other details about your sample that you feel can't be accurately represented in the available columns.", + "title": "experimental factor- other", + "comments": [ + "This slot accepts open-ended text about your sample.", + "We recommend using key:value pairs.", + "Provided pairs will be considered for inclusion as future slots/terms in this data collection template." + ], + "examples": [ + { + "value": "experimental treatment: value" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:experimental_factor|additional_info" + ], + "rank": 7, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "filter_method": { + "name": "filter_method", + "description": "Type of filter used or how the sample was filtered", + "title": "filter method", + "comments": [ + "describe the filter or provide a catalog number and manufacturer" + ], + "examples": [ + { + "value": "C18" + }, + { + "value": "Basix PES, 13-100-106 FisherSci" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:filter_type" + ], + "rank": 6, + "string_serialization": "{text}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "isotope_exposure": { + "name": "isotope_exposure", + "description": "List isotope exposure or addition applied to your sample.", + "title": "isotope exposure/addition", + "todos": [ + "Can we make the H218O correctly super and subscripted?" + ], + "comments": [ + "This is required when your experimental design includes the use of isotopically labeled compounds" + ], + "examples": [ + { + "value": "13C glucose" + }, + { + "value": "H218O" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:chem_administration" + ], + "rank": 16, + "string_serialization": "{termLabel} {[termID]}; {timestamp}", + "multivalued": false, + "owner": "Biosample", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]; ([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "micro_biomass_c_meth": { + "name": "micro_biomass_c_meth", + "description": "Reference or method used in determining microbial biomass carbon", + "title": "microbial biomass carbon method", + "todos": [ + "How should we separate values? 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DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 1, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "collection_time", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "collection_time_inc": { + "name": "collection_time_inc", + "description": "Time the incubation was harvested/collected/ended. 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See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 3, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "collection_time_inc", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + }, + "experimental_factor_other": { + "name": "experimental_factor_other", + "description": "Other details about your sample that you feel can't be accurately represented in the available columns.", + "title": "experimental factor- other", + "comments": [ + "This slot accepts open-ended text about your sample.", + "We recommend using key:value pairs.", + "Provided pairs will be considered for inclusion as future slots/terms in this data collection template." + ], + "examples": [ + { + "value": "experimental treatment: value" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:experimental_factor|additional_info" + ], + "rank": 7, + "string_serialization": "{text}", + "multivalued": false, + "alias": "experimental_factor_other", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "filter_method": { + "name": "filter_method", + "description": "Type of filter used or how the sample was filtered", + "title": "filter method", + "comments": [ + "describe the filter or provide a catalog number and manufacturer" + ], + "examples": [ + { + "value": "C18" + }, + { + "value": "Basix PES, 13-100-106 FisherSci" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:filter_type" + ], + "rank": 6, + "string_serialization": "{text}", + "multivalued": false, + "alias": "filter_method", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "isotope_exposure": { + "name": "isotope_exposure", + "description": "List isotope exposure or addition applied to your sample.", + "title": "isotope exposure/addition", + "todos": [ + "Can we make the H218O correctly super and subscripted?" + ], + "comments": [ + "This is required when your experimental design includes the use of isotopically labeled compounds" + ], + "examples": [ + { + "value": "13C glucose" + }, + { + "value": "H218O" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:chem_administration" + ], + "rank": 16, + "string_serialization": "{termLabel} {[termID]}; {timestamp}", + "multivalued": false, + "alias": "isotope_exposure", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]; ([\\+-]?\\d{4}(?!\\d{2}\\b))((-?)((0[1-9]|1[0-2])(\\3([12]\\d|0[1-9]|3[01]))?|W([0-4]\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\d|[12]\\d{2}|3([0-5]\\d|6[1-6])))([T\\s]((([01]\\d|2[0-3])((:?)[0-5]\\d)?|24\\:?00)([\\.,]\\d+(?!:))?)?(\\17[0-5]\\d([\\.,]\\d+)?)?([zZ]|([\\+-])([01]\\d|2[0-3]):?([0-5]\\d)?)?)?)?$" + }, + "micro_biomass_c_meth": { + "name": "micro_biomass_c_meth", + "description": "Reference or method used in determining microbial biomass carbon", + "title": "microbial biomass carbon method", + "todos": [ + "How should we separate values? | or ;? lets be consistent" + ], + "comments": [ + "required if \"microbial_biomass_c\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6" + }, + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:micro_biomass_meth" + ], + "rank": 1004, + "string_serialization": "{PMID}|{DOI}|{URL}", + "multivalued": false, + "alias": "micro_biomass_c_meth", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "micro_biomass_n_meth": { + "name": "micro_biomass_n_meth", + "description": "Reference or method used in determining microbial biomass nitrogen", + "title": "microbial biomass nitrogen method", + "comments": [ + "required if \"microbial_biomass_n\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6" + }, + { + "value": "https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:micro_biomass_meth" + ], + "rank": 1004, + "string_serialization": "{PMID}|{DOI}|{URL}", + "multivalued": false, + "alias": "micro_biomass_n_meth", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string" + }, + "microbial_biomass_c": { + "name": "microbial_biomass_c", + "description": "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.", + "title": "microbial biomass carbon", + "comments": [ + "If you provide this, correction factors used for conversion to the final units and method are required" + ], + "examples": [ + { + "value": "0.05 ug C/g dry soil" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 1004, + "string_serialization": "{float} {unit}", + "multivalued": false, + "alias": "microbial_biomass_c", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "microbial_biomass_n": { + "name": "microbial_biomass_n", + "description": "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.", + "title": "microbial biomass nitrogen", + "comments": [ + "If you provide this, correction factors used for conversion to the final units and method are required" + ], + "examples": [ + { + "value": "0.05 ug N/g dry soil" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 1004, + "string_serialization": "{float} {unit}", + "multivalued": false, + "alias": "microbial_biomass_n", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? \\S+$" + }, + "non_microb_biomass": { + "name": "non_microb_biomass", + "description": "Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ;", + "title": "non-microbial biomass", + "examples": [ + { + "value": "insect 0.23 ug; plant 1g" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:biomass|microbial_biomass" + ], + "rank": 8, + "string_serialization": "{text};{float} {unit}", + "multivalued": false, + "alias": "non_microb_biomass", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "pattern": "^[^;\\t\\r\\x0A\\|]+;[-+]?[0-9]*\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\t\\r\\x0A\\|]+$" + }, + "non_microb_biomass_method": { + "name": "non_microb_biomass_method", + "description": "Reference or method used in determining biomass", + "title": "non-microbial biomass method", + "comments": [ + "required if \"non-microbial biomass\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1038/s41467-021-26181-3" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:microbial_biomass" + ], + "rank": 9, + "string_serialization": "{PMID}|{DOI}|{URL}", + "multivalued": false, + "alias": "non_microb_biomass_method", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string" + }, + "org_nitro_method": { + "name": "org_nitro_method", + "description": "Method used for obtaining organic nitrogen", + "title": "organic nitrogen method", + "comments": [ + "required if \"org_nitro\" is provided" + ], + "examples": [ + { + "value": "https://doi.org/10.1016/0038-0717(85)90144-0" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:org_nitro|tot_nitro_cont_meth" + ], + "rank": 14, + "string_serialization": "{PMID}|{DOI}|{URL}", + "multivalued": false, + "alias": "org_nitro_method", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string" + }, + "other_treatment": { + "name": "other_treatment", + "description": "Other treatments applied to your samples that are not applicable to the provided fields", + "title": "other treatments", + "comments": [ + "This is an open text field to provide any treatments that cannot be captured in the provided slots." + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:additional_info" + ], + "rank": 15, + "string_serialization": "{text}", + "multivalued": false, + "alias": "other_treatment", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true + }, + "start_date_inc": { + "name": "start_date_inc", + "description": "Date the incubation was started. Only relevant for incubation samples.", + "title": "incubation start date", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only" + ], + "comments": [ + "Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable." + ], + "examples": [ + { + "value": "2021-04-15, 2021-04 and 2021 are all acceptable." + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 4, + "string_serialization": "{date, arbitrary precision}", + "multivalued": false, + "alias": "start_date_inc", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^[12]\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\d|3[01]))?)?$" + }, + "start_time_inc": { + "name": "start_time_inc", + "description": "Time the incubation was started. Only relevant for incubation samples.", + "title": "incubation start time, GMT", + "notes": [ + "MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only" + ], + "comments": [ + "Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter" + ], + "examples": [ + { + "value": "13:33 or 13:33:55" + } + ], + "from_schema": "https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc", + "see_also": [ + "MIxS:collection_date" + ], + "rank": 5, + "string_serialization": "{time, seconds optional}", + "multivalued": false, + "alias": "start_time_inc", + "owner": "SoilMixsInspiredMixin", + "domain_of": [ + "Biosample", + "SoilInterface", + "SoilMixsInspiredMixin" + ], + "slot_group": "mixs_inspired_section", + "range": "string", + "recommended": true, + "pattern": "^([01]?\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\d)(:([0-5]\\d))?$" + } + } + }, + "DhInterface": { + "name": "DhInterface", + "description": "One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various standards, user facilities or analysis types", + "title": "Dh Root Interface", + "from_schema": "https://example.com/nmdc_submission_schema" + }, + "SampleData": { + "name": "SampleData", + "description": "represents data produced by the DataHarmonizer tabs of the submission portal", + "title": "SampleData", + "from_schema": "https://example.com/nmdc_submission_schema", + "slots": [ + "air_data", + "biofilm_data", + "built_env_data", + "host_associated_data", + "plant_associated_data", + "sediment_data", + "soil_data", + "wastewater_sludge_data", + "water_data", + "emsl_data", + "jgi_mg_data", + "jgi_mt_data" + ], + "attributes": { + "air_data": { + "name": "air_data", + "description": "aggregation slot relating air data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "air_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "AirInterface", + "inlined": true, + "inlined_as_list": true + }, + "biofilm_data": { + "name": "biofilm_data", + "description": "aggregation slot relating biofilm data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "biofilm_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "BiofilmInterface", + "inlined": true, + "inlined_as_list": true + }, + "built_env_data": { + "name": "built_env_data", + "description": "aggregation slot relating built_env data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "built_env_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "BuiltEnvInterface", + "inlined": true, + "inlined_as_list": true + }, + "host_associated_data": { + "name": "host_associated_data", + "description": "aggregation slot relating host_associated data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "host_associated_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "HostAssociatedInterface", + "inlined": true, + "inlined_as_list": true + }, + "plant_associated_data": { + "name": "plant_associated_data", + "description": "aggregation slot relating plant_associated data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "plant_associated_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "PlantAssociatedInterface", + "inlined": true, + "inlined_as_list": true + }, + "sediment_data": { + "name": "sediment_data", + "description": "aggregation slot relating sediment data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "sediment_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "SedimentInterface", + "inlined": true, + "inlined_as_list": true + }, + "soil_data": { + "name": "soil_data", + "description": "aggregation slot relating soil data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "soil_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "SoilInterface", + "inlined": true, + "inlined_as_list": true + }, + "wastewater_sludge_data": { + "name": "wastewater_sludge_data", + "description": "aggregation slot relating wastewater_sludge data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "wastewater_sludge_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "WastewaterSludgeInterface", + "inlined": true, + "inlined_as_list": true + }, + "water_data": { + "name": "water_data", + "description": "aggregation slot relating water data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "water_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "WaterInterface", + "inlined": true, + "inlined_as_list": true + }, + "emsl_data": { + "name": "emsl_data", + "description": "aggregation slot relating emsl data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "emsl_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "EmslInterface", + "inlined": true, + "inlined_as_list": true + }, + "jgi_mg_data": { + "name": "jgi_mg_data", + "description": "aggregation slot relating jgi_mg data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "jgi_mg_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "JgiMgInterface", + "inlined": true, + "inlined_as_list": true + }, + "jgi_mt_data": { + "name": "jgi_mt_data", + "description": "aggregation slot relating jgi_mt data collections to a SampleData container", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": true, + "alias": "jgi_mt_data", + "owner": "SampleData", + "domain_of": [ + "SampleData" + ], + "range": "JgiMtInterface", + "inlined": true, + "inlined_as_list": true + } + }, + "tree_root": true + }, + "NamedThing": { + "name": "NamedThing", + "description": "a databased entity or concept/class", + "from_schema": "https://example.com/nmdc_submission_schema", + "abstract": true, + "slots": [ + "id", + "name", + "description", + "alternative_identifiers" + ], + "attributes": { + "id": { + "name": "id", + "description": "A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI", + "notes": [ + "abstracted pattern: prefix:typecode-authshoulder-blade(.version)?(_seqsuffix)?", + "a minimum length of 3 characters is suggested for typecodes, but 1 or 2 characters will be accepted", + "typecodes must correspond 1:1 to a class in the NMDC schema. this will be checked via per-class id slot usage assertions", + "minting authority shoulders should probably be enumerated and checked in the pattern" + ], + "examples": [ + { + "value": "nmdc:mgmag-00-x012.1_7_c1", + "description": "https://github.com/microbiomedata/nmdc-schema/pull/499#discussion_r1018499248" + } + ], + "from_schema": "https://example.com/nmdc_submission_schema", + "identifier": true, + "alias": "id", + "owner": "NamedThing", + "domain_of": [ + "NamedThing" + ], + "range": "uriorcurie", + "required": true + }, + "name": { + "name": "name", + "description": "A human readable label for an entity", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": false, + "alias": "name", + "owner": "NamedThing", + "domain_of": [ + "NamedThing" + ], + "range": "string" + }, + "description": { + "name": "description", + "description": "a human-readable description of a thing", + "from_schema": "https://example.com/nmdc_submission_schema", + "slot_uri": "dcterms:description", + "multivalued": false, + "alias": "description", + "owner": "NamedThing", + "domain_of": [ + "NamedThing" + ], + "range": "string" + }, + "alternative_identifiers": { + "name": "alternative_identifiers", + "description": "A list of alternative identifiers for the entity.", + "from_schema": "https://example.com/nmdc_submission_schema", + "multivalued": false, + "alias": "alternative_identifiers", + "owner": "NamedThing", + "domain_of": [ + "NamedThing" + ], + "range": "string" + } + } + } + }, + "source_file": "src/nmdc_submission_schema/schema/nmdc_submission_schema.yaml", + "@type": "SchemaDefinition" +} diff --git a/project/jsonschema/nmdc_submission_schema.schema.json b/project/jsonschema/nmdc_submission_schema.schema.json index c254da1c..920b216c 100644 --- a/project/jsonschema/nmdc_submission_schema.schema.json +++ b/project/jsonschema/nmdc_submission_schema.schema.json @@ -4006,52 +4006,6 @@ }, "JgiMgInterface": { "additionalProperties": false, - "allOf": [ - { - "if": { - "properties": { - "dna_cont_well": { - "pattern": ".+" - } - }, - "required": [ - "dna_cont_well" - ] - }, - "then": { - "properties": { - "dna_cont_type": { - "const": "plate" - } - }, - "required": [ - "dna_cont_type" - ] - } - }, - { - "if": { - "properties": { - "dna_cont_type": { - "const": "plate" - } - }, - "required": [ - "dna_cont_type" - ] - }, - "then": { - "properties": { - "dna_cont_well": { - "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" - } - }, - "required": [ - "dna_cont_well" - ] - } - } - ], "description": "jgi_mg dh_interface", "properties": { "analysis_type": { @@ -4157,52 +4111,6 @@ }, "JgiMtInterface": { "additionalProperties": false, - "allOf": [ - { - "if": { - "properties": { - "rna_cont_well": { - "pattern": ".+" - } - }, - "required": [ - "rna_cont_well" - ] - }, - "then": { - "properties": { - "rna_cont_type": { - "const": "plate" - } - }, - "required": [ - "rna_cont_type" - ] - } - }, - { - "if": { - "properties": { - "rna_cont_type": { - "const": "plate" - } - }, - "required": [ - "rna_cont_type" - ] - }, - "then": { - "properties": { - "rna_cont_well": { - "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" - } - }, - "required": [ - "rna_cont_well" - ] - } - } - ], "description": "jgi_mt dh_interface", "properties": { "analysis_type": { @@ -7855,7 +7763,52 @@ "$id": "https://example.com/nmdc_submission_schema", "$schema": "http://json-schema.org/draft-07/schema#", "additionalProperties": false, - "description": "represents data produced by the DataHarmonizer tabs of the submission portal", + "allOf": [ + { + "if": { + "properties": { + "rna_cont_well": { + "pattern": ".+" + } + }, + "required": [ + "rna_cont_well" + ] + }, + "then": { + "properties": { + "rna_cont_type": { + "const": "plate" + } + }, + "required": [ + "rna_cont_type" + ] + } + }, + { + "if": { + "properties": { + "rna_cont_type": { + "const": "plate" + } + }, + "required": [ + "rna_cont_type" + ] + }, + "then": { + "properties": { + "rna_cont_well": { + "pattern": "^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$" + } + }, + "required": [ + "rna_cont_well" + ] + } + } + ], "metamodel_version": "1.7.0", "properties": { "air_data": { diff --git a/project/owl/nmdc_submission_schema.owl.ttl b/project/owl/nmdc_submission_schema.owl.ttl new file mode 100644 index 00000000..b240a8b4 --- /dev/null +++ b/project/owl/nmdc_submission_schema.owl.ttl @@ -0,0 +1,18584 @@ +@prefix IAO: . +@prefix MIXS: . +@prefix dcterms: . +@prefix linkml: . +@prefix nmdc_sub_schema: . +@prefix owl: . +@prefix rdf: . +@prefix rdfs: . +@prefix shex: . +@prefix skos: . +@prefix xsd: . + +nmdc_sub_schema:Boolean a owl:Class, + linkml:TypeDefinition ; + rdfs:label "boolean" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:boolean ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Curie a owl:Class, + linkml:TypeDefinition ; + rdfs:label "curie" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:string ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Date a owl:Class, + linkml:TypeDefinition ; + rdfs:label "date" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:date ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:DateOrDatetime a owl:Class, + linkml:TypeDefinition ; + rdfs:label "date_or_datetime" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange linkml:DateOrDatetime ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Datetime a owl:Class, + linkml:TypeDefinition ; + rdfs:label "datetime" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:dateTime ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Decimal a owl:Class, + linkml:TypeDefinition ; + rdfs:label "decimal" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:decimal ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:DecimalDegree a owl:Class, + linkml:TypeDefinition ; + rdfs:label "decimal degree" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:decimal ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Ncname a owl:Class, + linkml:TypeDefinition ; + rdfs:label "ncname" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:string ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Nodeidentifier a owl:Class, + linkml:TypeDefinition ; + rdfs:label "nodeidentifier" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange shex:nonLiteral ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Objectidentifier a owl:Class, + linkml:TypeDefinition ; + rdfs:label "objectidentifier" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange shex:iri ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Time a owl:Class, + linkml:TypeDefinition ; + rdfs:label "time" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:dateTime ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Unit a owl:Class, + linkml:TypeDefinition ; + rdfs:label "unit" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:string ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:Uri a owl:Class, + linkml:TypeDefinition ; + rdfs:label "uri" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:anyURI ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:analysis_type a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "analysis_type" ; + dcterms:title "analysis/data type" ; + rdfs:range nmdc_sub_schema:AnalysisTypeEnum ; + skos:definition "Select all the data types associated or available for this biosample" . + +nmdc_sub_schema:collection_date_inc a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "collection_date_inc" ; + dcterms:title "incubation collection date" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Date the incubation was harvested/collected/ended. Only relevant for incubation samples." . + +nmdc_sub_schema:collection_time a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "collection_time" ; + dcterms:title "collection time, GMT" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "The time of sampling, either as an instance (single point) or interval." . + +nmdc_sub_schema:collection_time_inc a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "collection_time_inc" ; + dcterms:title "incubation collection time, GMT" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Time the incubation was harvested/collected/ended. Only relevant for incubation samples." . + +nmdc_sub_schema:dna_absorb1 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_absorb1" ; + dcterms:title "DNA absorbance 260/280" ; + rdfs:range nmdc_sub_schema:Float ; + skos:definition "260/280 measurement of DNA sample purity" . + +nmdc_sub_schema:dna_absorb2 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_absorb2" ; + dcterms:title "DNA absorbance 260/230" ; + rdfs:range nmdc_sub_schema:Float ; + skos:definition "260/230 measurement of DNA sample purity" . + +nmdc_sub_schema:dna_concentration a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_concentration" ; + dcterms:title "DNA concentration in ng/ul" ; + rdfs:range nmdc_sub_schema:Float . + +nmdc_sub_schema:dna_cont_type a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_cont_type" ; + dcterms:title "DNA container type" ; + rdfs:range nmdc_sub_schema:JgiContTypeEnum ; + skos:definition "Tube or plate (96-well)" . + +nmdc_sub_schema:dna_cont_well a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_cont_well" ; + dcterms:title "DNA plate position" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_container_id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_container_id" ; + dcterms:title "DNA container label" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_dnase a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_dnase" ; + dcterms:title "DNase treatment DNA" ; + rdfs:range nmdc_sub_schema:YesNoEnum . + +nmdc_sub_schema:dna_isolate_meth a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_isolate_meth" ; + dcterms:title "DNA isolation method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Describe the method/protocol/kit used to extract DNA/RNA." . + +nmdc_sub_schema:dna_project_contact a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_project_contact" ; + dcterms:title "DNA seq project contact" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_samp_id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_samp_id" ; + dcterms:title "DNA sample ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_sample_format a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_sample_format" ; + dcterms:title "DNA sample format" ; + rdfs:range nmdc_sub_schema:DnaSampleFormatEnum ; + skos:definition "Solution in which the DNA sample has been suspended" . + +nmdc_sub_schema:dna_sample_name a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_sample_name" ; + dcterms:title "DNA sample name" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only." . + +nmdc_sub_schema:dna_seq_project a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_seq_project" ; + dcterms:title "DNA seq project ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_seq_project_name a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_seq_project_name" ; + dcterms:title "DNA seq project name" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_seq_project_pi a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_seq_project_pi" ; + dcterms:title "DNA seq project PI" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:dna_volume a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dna_volume" ; + dcterms:title "DNA volume in ul" ; + rdfs:range nmdc_sub_schema:Float . + +nmdc_sub_schema:dnase_rna a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dnase_rna" ; + dcterms:title "DNase treated" ; + rdfs:range nmdc_sub_schema:YesNoEnum . + +nmdc_sub_schema:emsl_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "emsl_section" ; + dcterms:title "EMSL" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:emsl_store_temp a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "emsl_store_temp" ; + dcterms:title "EMSL sample storage temperature, deg. C" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "The temperature at which the sample should be stored upon delivery to EMSL" . + +nmdc_sub_schema:experimental_factor_other a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "experimental_factor_other" ; + dcterms:title "experimental factor- other" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Other details about your sample that you feel can't be accurately represented in the available columns." . + +nmdc_sub_schema:filter_method a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "filter_method" ; + dcterms:title "filter method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Type of filter used or how the sample was filtered" . + +nmdc_sub_schema:hcr_cores_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_cores_data" ; + rdfs:range nmdc_sub_schema:HcrCoresInterface ; + skos:definition "aggregation slot relating hcr_cores data collections to a SampleData container" . + +nmdc_sub_schema:hcr_fluids_swabs_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_fluids_swabs_data" ; + rdfs:range nmdc_sub_schema:HcrFluidsSwabsInterface ; + skos:definition "aggregation slot relating hcr_fluids_swabs data collections to a SampleData container" . + +nmdc_sub_schema:isotope_exposure a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "isotope_exposure" ; + dcterms:title "isotope exposure/addition" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "List isotope exposure or addition applied to your sample." . + +nmdc_sub_schema:jgi_metagenomics_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "jgi_metagenomics_section" ; + dcterms:title "JGI-Metagenomics" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:jgi_metatranscriptomics_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "jgi_metatranscriptomics_section" ; + dcterms:title "JGI-Metatranscriptomics" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:language a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "language" ; + rdfs:range nmdc_sub_schema:LanguageCode ; + skos:definition "Should use ISO 639-1 code e.g. \"en\", \"fr\"" . + +nmdc_sub_schema:micro_biomass_c_meth a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "micro_biomass_c_meth" ; + dcterms:title "microbial biomass carbon method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Reference or method used in determining microbial biomass carbon" . + +nmdc_sub_schema:micro_biomass_n_meth a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "micro_biomass_n_meth" ; + dcterms:title "microbial biomass nitrogen method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Reference or method used in determining microbial biomass nitrogen" . + +nmdc_sub_schema:microbial_biomass_c a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "microbial_biomass_c" ; + dcterms:title "microbial biomass carbon" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer." . + +nmdc_sub_schema:microbial_biomass_n a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "microbial_biomass_n" ; + dcterms:title "microbial biomass nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer." . + +nmdc_sub_schema:misc_envs_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "misc_envs_data" ; + rdfs:range nmdc_sub_schema:MiscEnvsInterface ; + skos:definition "aggregation slot relating misc_envs data collections to a SampleData container" . + +nmdc_sub_schema:mixs_core_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_core_section" ; + dcterms:title "MIxS Core" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:mixs_inspired_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_inspired_section" ; + dcterms:title "MIxS Inspired" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:mixs_investigation_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_investigation_section" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:mixs_modified_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_modified_section" ; + dcterms:title "MIxS (modified)" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:mixs_nassf_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_nassf_section" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:mixs_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mixs_section" ; + dcterms:title "MIxS" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:non_microb_biomass a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "non_microb_biomass" ; + dcterms:title "non-microbial biomass" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ;" . + +nmdc_sub_schema:non_microb_biomass_method a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "non_microb_biomass_method" ; + dcterms:title "non-microbial biomass method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Reference or method used in determining biomass" . + +nmdc_sub_schema:org_nitro_method a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_nitro_method" ; + dcterms:title "organic nitrogen method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Method used for obtaining organic nitrogen" . + +nmdc_sub_schema:other_treatment a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "other_treatment" ; + dcterms:title "other treatments" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Other treatments applied to your samples that are not applicable to the provided fields" . + +nmdc_sub_schema:project_id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "project_id" ; + dcterms:title "project ID" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Proposal IDs or names associated with dataset" . + +nmdc_sub_schema:proposal_dna a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "proposal_dna" ; + dcterms:title "DNA proposal ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:proposal_rna a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "proposal_rna" ; + dcterms:title "RNA proposal ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:replicate_number a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "replicate_number" ; + dcterms:title "replicate number" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "If sending biological replicates, indicate the rep number here." . + +nmdc_sub_schema:rna_absorb1 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_absorb1" ; + dcterms:title "RNA absorbance 260/280" ; + rdfs:range nmdc_sub_schema:Float ; + skos:definition "260/280 measurement of RNA sample purity" . + +nmdc_sub_schema:rna_absorb2 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_absorb2" ; + dcterms:title "RNA absorbance 260/230" ; + rdfs:range nmdc_sub_schema:Float ; + skos:definition "260/230 measurement of RNA sample purity" . + +nmdc_sub_schema:rna_concentration a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_concentration" ; + dcterms:title "RNA concentration in ng/ul" ; + rdfs:range nmdc_sub_schema:Float . + +nmdc_sub_schema:rna_cont_type a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_cont_type" ; + dcterms:title "RNA container type" ; + rdfs:range nmdc_sub_schema:JgiContTypeEnum ; + skos:definition "Tube or plate (96-well)" . + +nmdc_sub_schema:rna_cont_well a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_cont_well" ; + dcterms:title "RNA plate position" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_container_id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_container_id" ; + dcterms:title "RNA container label" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_isolate_meth a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_isolate_meth" ; + dcterms:title "RNA isolation method" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Describe the method/protocol/kit used to extract DNA/RNA." . + +nmdc_sub_schema:rna_project_contact a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_project_contact" ; + dcterms:title "RNA seq project contact" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_samp_id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_samp_id" ; + dcterms:title "RNA sample ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_sample_format a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_sample_format" ; + dcterms:title "RNA sample format" ; + rdfs:range nmdc_sub_schema:RnaSampleFormatEnum ; + skos:definition "Solution in which the RNA sample has been suspended" . + +nmdc_sub_schema:rna_sample_name a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_sample_name" ; + dcterms:title "RNA sample name" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only." . + +nmdc_sub_schema:rna_seq_project a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_seq_project" ; + dcterms:title "RNA seq project ID" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_seq_project_name a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_seq_project_name" ; + dcterms:title "RNA seq project name" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_seq_project_pi a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_seq_project_pi" ; + dcterms:title "RNA seq project PI" ; + rdfs:range nmdc_sub_schema:String . + +nmdc_sub_schema:rna_volume a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rna_volume" ; + dcterms:title "RNA volume in ul" ; + rdfs:range nmdc_sub_schema:Float . + +nmdc_sub_schema:sample_id_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sample_id_section" ; + dcterms:title "Sample ID" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:dh_section ; + skos:definition "placeholder" ; + linkml:is_a "dh_section" . + +nmdc_sub_schema:sample_shipped a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sample_shipped" ; + dcterms:title "sample shipped amount" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL." . + +nmdc_sub_schema:sample_type a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sample_type" ; + dcterms:title "sample type" ; + rdfs:range nmdc_sub_schema:SampleTypeEnum ; + skos:definition "Type of sample being submitted" . + +nmdc_sub_schema:start_date_inc a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "start_date_inc" ; + dcterms:title "incubation start date" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Date the incubation was started. Only relevant for incubation samples." . + +nmdc_sub_schema:start_time_inc a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "start_time_inc" ; + dcterms:title "incubation start time, GMT" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "Time the incubation was started. Only relevant for incubation samples." . + +nmdc_sub_schema:technical_reps a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "technical_reps" ; + dcterms:title "number technical replicate" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "If sending technical replicates of the same sample, indicate the replicate count." . + + a owl:Ontology ; + rdfs:label "nmdc_submission_schema" ; + IAO:0000700 nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:NamedThing, + nmdc_sub_schema:SampIdNewTermsMixin, + nmdc_sub_schema:SampleData, + nmdc_sub_schema:SoilMixsInspiredMixin ; + linkml:classes "{'AirInterface': ClassDefinition(name='AirInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/AirInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='air dh_interface', alt_descriptions={}, title='Air', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['air_PM_concen', 'alt', 'barometric_press', 'carb_dioxide', 'carb_monoxide', 'chem_administration', 'collection_date', 'depth', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'geo_loc_name', 'horizon_meth', 'humidity', 'lat_lon', 'methane', 'misc_param', 'organism_count', 'oxy_stat_samp', 'oxygen', 'perturbation', 'pollutants', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'AirInterface_sample_link', 'size_frac', 'solar_irradiance', 'specific_ecosystem', 'temp', 'ventilation_rate', 'ventilation_type', 'volatile_org_comp', 'wind_direction', 'wind_speed', 'AirInterface_air_PM_concen', 'AirInterface_alt', 'AirInterface_barometric_press', 'AirInterface_carb_dioxide', 'AirInterface_carb_monoxide', 'AirInterface_chem_administration', 'AirInterface_collection_date', 'AirInterface_depth', 'AirInterface_ecosystem', 'AirInterface_ecosystem_category', 'AirInterface_ecosystem_subtype', 'AirInterface_ecosystem_type', 'AirInterface_elev', 'AirInterface_env_broad_scale', 'AirInterface_env_local_scale', 'AirInterface_env_medium', 'AirInterface_env_package', 'AirInterface_experimental_factor', 'AirInterface_geo_loc_name', 'AirInterface_horizon_meth', 'AirInterface_humidity', 'AirInterface_lat_lon', 'AirInterface_methane', 'AirInterface_misc_param', 'AirInterface_organism_count', 'AirInterface_oxy_stat_samp', 'AirInterface_oxygen', 'AirInterface_perturbation', 'AirInterface_pollutants', 'AirInterface_salinity', 'AirInterface_samp_collec_device', 'AirInterface_samp_collec_method', 'AirInterface_samp_mat_process', 'AirInterface_samp_size', 'AirInterface_samp_store_dur', 'AirInterface_samp_store_loc', 'AirInterface_samp_store_temp', 'AirInterface_size_frac', 'AirInterface_solar_irradiance', 'AirInterface_specific_ecosystem', 'AirInterface_temp', 'AirInterface_ventilation_rate', 'AirInterface_ventilation_type', 'AirInterface_volatile_org_comp', 'AirInterface_wind_direction', 'AirInterface_wind_speed', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'air_PM_concen': SlotDefinition(name='air_PM_concen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='particulate matter name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrograms per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description=\"Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM\", alt_descriptions={}, title='air particulate matter concentration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='PM2.5;10 microgram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['air particulate matter concentration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=48, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000108', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alt': SlotDefinition(name='alt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description=\"Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air\", alt_descriptions={}, title='altitude', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['altitude'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000094', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'barometric_press': SlotDefinition(name='barometric_press', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millibar', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Force per unit area exerted against a surface by the weight of air above that surface', alt_descriptions={}, title='barometric pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 millibar', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['barometric pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=49, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000096', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_dioxide': SlotDefinition(name='carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Carbon dioxide (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='410 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=50, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000097', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_monoxide': SlotDefinition(name='carb_monoxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Carbon monoxide (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='carbon monoxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.1 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon monoxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=51, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000098', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'humidity': SlotDefinition(name='humidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Amount of water vapour in the air, at the time of sampling', alt_descriptions={}, title='humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 gram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=52, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000100', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'methane': SlotDefinition(name='methane', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per billion, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Methane (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='methane', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1800 parts per billion', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['methane'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000101', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxygen': SlotDefinition(name='oxygen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Oxygen (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='oxygen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='600 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['oxygen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000104', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pollutants': SlotDefinition(name='pollutants', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='pollutant name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter, microgram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant', alt_descriptions={}, title='pollutants', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='lead;0.15 microgram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pollutants'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000107', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'solar_irradiance': SlotDefinition(name='solar_irradiance', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilowatts per square meter per day, ergs per square centimeter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The amount of solar energy that arrives at a specific area of a surface during a specific time interval', alt_descriptions={}, title='solar irradiance', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.36 kilowatts per square meter per day', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['solar irradiance'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=55, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000112', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ventilation_rate': SlotDefinition(name='ventilation_rate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic meter per minute, liters per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ventilation rate of the system in the sampled premises', alt_descriptions={}, title='ventilation rate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='750 cubic meter per minute', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ventilation rate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=56, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000114', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ventilation_type': SlotDefinition(name='ventilation_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='ventilation type name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ventilation system used in the sampled premises', alt_descriptions={}, title='ventilation type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Operable windows', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ventilation type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=57, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000756', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'volatile_org_comp': SlotDefinition(name='volatile_org_comp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='volatile organic compound name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per cubic meter, parts per million, nanogram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound', alt_descriptions={}, title='volatile organic compounds', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='formaldehyde;500 nanogram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['volatile organic compounds'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=58, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000115', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wind_direction': SlotDefinition(name='wind_direction', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='wind direction name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Wind direction is the direction from which a wind originates', alt_descriptions={}, title='wind direction', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Northwest', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wind direction'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=59, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000757', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wind_speed': SlotDefinition(name='wind_speed', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second, kilometer per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Speed of wind measured at the time of sampling', alt_descriptions={}, title='wind speed', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='21 kilometer per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wind speed'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=60, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000118', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:AirInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'BiofilmInterface': ClassDefinition(name='BiofilmInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BiofilmInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='biofilm dh_interface', alt_descriptions={}, title='Biofilm', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alkalinity', 'alkyl_diethers', 'alt', 'aminopept_act', 'ammonium', 'bacteria_carb_prod', 'biomass', 'bishomohopanol', 'bromide', 'calcium', 'carb_nitro_ratio', 'chem_administration', 'chloride', 'chlorophyll', 'collection_date', 'depth', 'diether_lipids', 'diss_carb_dioxide', 'diss_hydrogen', 'diss_inorg_carb', 'diss_org_carb', 'diss_org_nitro', 'diss_oxygen', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'geo_loc_name', 'glucosidase_act', 'horizon_meth', 'lat_lon', 'magnesium', 'mean_frict_vel', 'mean_peak_frict_vel', 'methane', 'misc_param', 'n_alkanes', 'nitrate', 'nitrite', 'nitro', 'org_carb', 'org_matter', 'org_nitro', 'organism_count', 'oxy_stat_samp', 'part_org_carb', 'perturbation', 'petroleum_hydrocarb', 'ph', 'ph_meth', 'phaeopigments', 'phosphate', 'phosplipid_fatt_acid', 'potassium', 'pressure', 'redox_potential', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'BiofilmInterface_sample_link', 'silicate', 'size_frac', 'sodium', 'specific_ecosystem', 'sulfate', 'sulfide', 'temp', 'tot_carb', 'tot_nitro_content', 'tot_org_carb', 'turbidity', 'water_content', 'BiofilmInterface_alkalinity', 'BiofilmInterface_alkyl_diethers', 'BiofilmInterface_alt', 'BiofilmInterface_aminopept_act', 'BiofilmInterface_ammonium', 'BiofilmInterface_bacteria_carb_prod', 'BiofilmInterface_biomass', 'BiofilmInterface_bishomohopanol', 'BiofilmInterface_bromide', 'BiofilmInterface_calcium', 'BiofilmInterface_carb_nitro_ratio', 'BiofilmInterface_chem_administration', 'BiofilmInterface_chloride', 'BiofilmInterface_chlorophyll', 'BiofilmInterface_collection_date', 'BiofilmInterface_depth', 'BiofilmInterface_diether_lipids', 'BiofilmInterface_diss_carb_dioxide', 'BiofilmInterface_diss_hydrogen', 'BiofilmInterface_diss_inorg_carb', 'BiofilmInterface_diss_org_carb', 'BiofilmInterface_diss_org_nitro', 'BiofilmInterface_diss_oxygen', 'BiofilmInterface_ecosystem', 'BiofilmInterface_ecosystem_category', 'BiofilmInterface_ecosystem_subtype', 'BiofilmInterface_ecosystem_type', 'BiofilmInterface_elev', 'BiofilmInterface_env_broad_scale', 'BiofilmInterface_env_local_scale', 'BiofilmInterface_env_medium', 'BiofilmInterface_env_package', 'BiofilmInterface_experimental_factor', 'BiofilmInterface_geo_loc_name', 'BiofilmInterface_glucosidase_act', 'BiofilmInterface_horizon_meth', 'BiofilmInterface_lat_lon', 'BiofilmInterface_magnesium', 'BiofilmInterface_mean_frict_vel', 'BiofilmInterface_mean_peak_frict_vel', 'BiofilmInterface_methane', 'BiofilmInterface_misc_param', 'BiofilmInterface_n_alkanes', 'BiofilmInterface_nitrate', 'BiofilmInterface_nitrite', 'BiofilmInterface_nitro', 'BiofilmInterface_org_carb', 'BiofilmInterface_org_matter', 'BiofilmInterface_org_nitro', 'BiofilmInterface_organism_count', 'BiofilmInterface_oxy_stat_samp', 'BiofilmInterface_part_org_carb', 'BiofilmInterface_perturbation', 'BiofilmInterface_petroleum_hydrocarb', 'BiofilmInterface_ph', 'BiofilmInterface_ph_meth', 'BiofilmInterface_phaeopigments', 'BiofilmInterface_phosphate', 'BiofilmInterface_phosplipid_fatt_acid', 'BiofilmInterface_potassium', 'BiofilmInterface_pressure', 'BiofilmInterface_redox_potential', 'BiofilmInterface_salinity', 'BiofilmInterface_samp_collec_device', 'BiofilmInterface_samp_collec_method', 'BiofilmInterface_samp_mat_process', 'BiofilmInterface_samp_size', 'BiofilmInterface_samp_store_dur', 'BiofilmInterface_samp_store_loc', 'BiofilmInterface_samp_store_temp', 'BiofilmInterface_silicate', 'BiofilmInterface_size_frac', 'BiofilmInterface_sodium', 'BiofilmInterface_specific_ecosystem', 'BiofilmInterface_sulfate', 'BiofilmInterface_sulfide', 'BiofilmInterface_temp', 'BiofilmInterface_tot_carb', 'BiofilmInterface_tot_nitro_content', 'BiofilmInterface_tot_org_carb', 'BiofilmInterface_turbidity', 'BiofilmInterface_water_content', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkyl_diethers': SlotDefinition(name='alkyl_diethers', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of alkyl diethers', alt_descriptions={}, title='alkyl diethers', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.005 mole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkyl diethers'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000490', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alt': SlotDefinition(name='alt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description=\"Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air\", alt_descriptions={}, title='altitude', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['altitude'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000094', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aminopept_act': SlotDefinition(name='aminopept_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of aminopeptidase activity', alt_descriptions={}, title='aminopeptidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.269 mole per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aminopeptidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000172', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bacteria_carb_prod': SlotDefinition(name='bacteria_carb_prod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of bacterial carbon production', alt_descriptions={}, title='bacterial carbon production', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.53 microgram per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bacterial carbon production'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000173', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biomass': SlotDefinition(name='biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='biomass type;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ton, kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements', alt_descriptions={}, title='biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total;20 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biomass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000174', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bishomohopanol': SlotDefinition(name='bishomohopanol', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, microgram per gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bishomohopanol', alt_descriptions={}, title='bishomohopanol', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='14 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bishomohopanol'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000175', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bromide': SlotDefinition(name='bromide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bromide', alt_descriptions={}, title='bromide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bromide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000176', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_nitro_ratio': SlotDefinition(name='carb_nitro_ratio', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ratio of amount or concentrations of carbon to nitrogen', alt_descriptions={}, title='carbon/nitrogen ratio', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.417361111', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon/nitrogen ratio'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000310', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chlorophyll': SlotDefinition(name='chlorophyll', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter, microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chlorophyll', alt_descriptions={}, title='chlorophyll', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chlorophyll'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000177', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diether_lipids': SlotDefinition(name='diether_lipids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='diether lipid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of diether lipids; can include multiple types of diether lipids', alt_descriptions={}, title='diether lipids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 nanogram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['diether lipids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000178', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_hydrogen': SlotDefinition(name='diss_hydrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved hydrogen', alt_descriptions={}, title='dissolved hydrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved hydrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000179', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_carb': SlotDefinition(name='diss_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid', alt_descriptions={}, title='dissolved organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='197 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000433', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_nitro': SlotDefinition(name='diss_org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2', alt_descriptions={}, title='dissolved organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000162', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen': SlotDefinition(name='diss_oxygen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen', alt_descriptions={}, title='dissolved oxygen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='175 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000119', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'glucosidase_act': SlotDefinition(name='glucosidase_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mol per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of glucosidase activity', alt_descriptions={}, title='glucosidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mol per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['glucosidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000137', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'magnesium': SlotDefinition(name='magnesium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter, milligram per liter, parts per million, micromole per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of magnesium in the sample', alt_descriptions={}, title='magnesium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='52.8 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['magnesium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000431', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_frict_vel': SlotDefinition(name='mean_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean friction velocity', alt_descriptions={}, title='mean friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=22, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000498', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_peak_frict_vel': SlotDefinition(name='mean_peak_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean peak friction velocity', alt_descriptions={}, title='mean peak friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean peak friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000502', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'methane': SlotDefinition(name='methane', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per billion, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Methane (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='methane', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1800 parts per billion', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['methane'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000101', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'n_alkanes': SlotDefinition(name='n_alkanes', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='n-alkane name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of n-alkanes; can include multiple n-alkanes', alt_descriptions={}, title='n-alkanes', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='n-hexadecane;100 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['n-alkanes'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000503', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitro': SlotDefinition(name='nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrogen (total)', alt_descriptions={}, title='nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=28, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000504', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_carb': SlotDefinition(name='org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic carbon', alt_descriptions={}, title='organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=29, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000508', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_matter': SlotDefinition(name='org_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic matter', alt_descriptions={}, title='organic matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.75 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000204', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro': SlotDefinition(name='org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic nitrogen', alt_descriptions={}, title='organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000205', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'part_org_carb': SlotDefinition(name='part_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of particulate organic carbon', alt_descriptions={}, title='particulate organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.92 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['particulate organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=31, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000515', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'petroleum_hydrocarb': SlotDefinition(name='petroleum_hydrocarb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of petroleum hydrocarbon', alt_descriptions={}, title='petroleum hydrocarbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['petroleum hydrocarbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=34, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000516', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phaeopigments': SlotDefinition(name='phaeopigments', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phaeopigment name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phaeopigments; can include multiple phaeopigments', alt_descriptions={}, title='phaeopigments', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phaeopigments'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=35, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000180', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosplipid_fatt_acid': SlotDefinition(name='phosplipid_fatt_acid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phospholipid fatty acid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per gram, mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phospholipid fatty acids; can include multiple values', alt_descriptions={}, title='phospholipid fatty acid', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.98 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phospholipid fatty acid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=36, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000181', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'redox_potential': SlotDefinition(name='redox_potential', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millivolt', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential', alt_descriptions={}, title='redox potential', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='300 millivolt', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['redox potential'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=40, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000182', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'silicate': SlotDefinition(name='silicate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of silicate', alt_descriptions={}, title='silicate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['silicate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=43, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000184', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_carb': SlotDefinition(name='tot_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total carbon content', alt_descriptions={}, title='total carbon', deprecated=None, todos=['is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\", 'is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\"], notes=[], comments=[], examples=[Example(value='1 ug/L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000525', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro_content': SlotDefinition(name='tot_nitro_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total nitrogen content of the sample', alt_descriptions={}, title='total nitrogen content', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=48, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000530', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_org_carb': SlotDefinition(name='tot_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content', alt_descriptions={}, title='total organic carbon', deprecated=None, todos=['check description. How are they different?', 'check description. How are they different?'], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=50, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000533', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'turbidity': SlotDefinition(name='turbidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='formazin turbidity unit, formazin nephelometric units', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measure of the amount of cloudiness or haziness in water caused by individual particles', alt_descriptions={}, title='turbidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 nephelometric turbidity units', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['turbidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000191', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_content': SlotDefinition(name='water_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='string', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per gram or cubic centimeter per cubic centimeter', extensions={}, annotations={})}, description='Water content measurement', alt_descriptions={}, title='water content', deprecated=None, todos=['value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?', 'value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?'], notes=[], comments=[], examples=[Example(value='75%', description=None, object=None), Example(value='75 %', description=None, object=None), Example(value='0.75 g water/g dry soil', description=None, object=None), Example(value='75% water holding capacity', description=None, object=None), Example(value='1.1 g fresh weight/ dry weight', description=None, object=None), Example(value='10% water filled pore space', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float or pct} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000185', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\\\S.+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:BiofilmInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'BuiltEnvInterface': ClassDefinition(name='BuiltEnvInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BuiltEnvInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='built_env dh_interface', alt_descriptions={}, title='Built Env', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['abs_air_humidity', 'address', 'adj_room', 'aero_struc', 'air_temp', 'alt', 'amount_light', 'arch_struc', 'avg_dew_point', 'avg_occup', 'avg_temp', 'bathroom_count', 'bedroom_count', 'build_docs', 'build_occup_type', 'building_setting', 'built_struc_age', 'built_struc_set', 'built_struc_type', 'carb_dioxide', 'ceil_area', 'ceil_cond', 'ceil_finish_mat', 'ceil_struc', 'ceil_texture', 'ceil_thermal_mass', 'ceil_type', 'ceil_water_mold', 'collection_date', 'cool_syst_id', 'date_last_rain', 'depth', 'dew_point', 'door_comp_type', 'door_cond', 'door_direct', 'door_loc', 'door_mat', 'door_move', 'door_size', 'door_type', 'door_type_metal', 'door_type_wood', 'door_water_mold', 'drawings', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'elevator', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'escalator', 'exp_duct', 'exp_pipe', 'experimental_factor', 'ext_door', 'ext_wall_orient', 'ext_window_orient', 'filter_type', 'fireplace_type', 'floor_age', 'floor_area', 'floor_cond', 'floor_count', 'floor_finish_mat', 'floor_struc', 'floor_thermal_mass', 'floor_water_mold', 'freq_clean', 'freq_cook', 'furniture', 'gender_restroom', 'geo_loc_name', 'hall_count', 'handidness', 'heat_cool_type', 'heat_deliv_loc', 'heat_sys_deliv_meth', 'heat_system_id', 'height_carper_fiber', 'horizon_meth', 'indoor_space', 'indoor_surf', 'inside_lux', 'int_wall_cond', 'last_clean', 'lat_lon', 'light_type', 'max_occup', 'mech_struc', 'number_pets', 'number_plants', 'number_resident', 'occup_density_samp', 'occup_document', 'occup_samp', 'organism_count', 'pres_animal_insect', 'quad_pos', 'rel_air_humidity', 'rel_humidity_out', 'rel_samp_loc', 'room_air_exch_rate', 'room_architec_elem', 'room_condt', 'room_connected', 'room_count', 'room_dim', 'room_door_dist', 'room_door_share', 'room_hallway', 'room_loc', 'room_moist_dam_hist', 'room_net_area', 'room_occup', 'room_samp_pos', 'room_type', 'room_vol', 'room_wall_share', 'room_window_count', 'samp_floor', 'samp_room_id', 'samp_sort_meth', 'samp_time_out', 'samp_weather', 'BuiltEnvInterface_sample_link', 'season', 'season_use', 'shad_dev_water_mold', 'shading_device_cond', 'shading_device_loc', 'shading_device_mat', 'shading_device_type', 'size_frac', 'space_typ_state', 'specific', 'specific_ecosystem', 'specific_humidity', 'substructure_type', 'surf_air_cont', 'surf_humidity', 'surf_material', 'surf_moisture', 'surf_moisture_ph', 'surf_temp', 'temp', 'temp_out', 'train_line', 'train_stat_loc', 'train_stop_loc', 'typ_occup_density', 'ventilation_type', 'vis_media', 'wall_area', 'wall_const_type', 'wall_finish_mat', 'wall_height', 'wall_loc', 'wall_surf_treatment', 'wall_texture', 'wall_thermal_mass', 'wall_water_mold', 'water_feat_size', 'water_feat_type', 'weekday', 'window_cond', 'window_cover', 'window_horiz_pos', 'window_loc', 'window_mat', 'window_open_freq', 'window_size', 'window_status', 'window_type', 'window_vert_pos', 'window_water_mold', 'BuiltEnvInterface_abs_air_humidity', 'BuiltEnvInterface_address', 'BuiltEnvInterface_adj_room', 'BuiltEnvInterface_aero_struc', 'BuiltEnvInterface_air_temp', 'BuiltEnvInterface_alt', 'BuiltEnvInterface_amount_light', 'BuiltEnvInterface_arch_struc', 'BuiltEnvInterface_avg_dew_point', 'BuiltEnvInterface_avg_occup', 'BuiltEnvInterface_avg_temp', 'BuiltEnvInterface_bathroom_count', 'BuiltEnvInterface_bedroom_count', 'BuiltEnvInterface_build_docs', 'BuiltEnvInterface_build_occup_type', 'BuiltEnvInterface_building_setting', 'BuiltEnvInterface_built_struc_age', 'BuiltEnvInterface_built_struc_set', 'BuiltEnvInterface_built_struc_type', 'BuiltEnvInterface_carb_dioxide', 'BuiltEnvInterface_ceil_area', 'BuiltEnvInterface_ceil_cond', 'BuiltEnvInterface_ceil_finish_mat', 'BuiltEnvInterface_ceil_struc', 'BuiltEnvInterface_ceil_texture', 'BuiltEnvInterface_ceil_thermal_mass', 'BuiltEnvInterface_ceil_type', 'BuiltEnvInterface_ceil_water_mold', 'BuiltEnvInterface_collection_date', 'BuiltEnvInterface_cool_syst_id', 'BuiltEnvInterface_date_last_rain', 'BuiltEnvInterface_depth', 'BuiltEnvInterface_dew_point', 'BuiltEnvInterface_door_comp_type', 'BuiltEnvInterface_door_cond', 'BuiltEnvInterface_door_direct', 'BuiltEnvInterface_door_loc', 'BuiltEnvInterface_door_mat', 'BuiltEnvInterface_door_move', 'BuiltEnvInterface_door_size', 'BuiltEnvInterface_door_type', 'BuiltEnvInterface_door_type_metal', 'BuiltEnvInterface_door_type_wood', 'BuiltEnvInterface_door_water_mold', 'BuiltEnvInterface_drawings', 'BuiltEnvInterface_ecosystem', 'BuiltEnvInterface_ecosystem_category', 'BuiltEnvInterface_ecosystem_subtype', 'BuiltEnvInterface_ecosystem_type', 'BuiltEnvInterface_elev', 'BuiltEnvInterface_elevator', 'BuiltEnvInterface_env_broad_scale', 'BuiltEnvInterface_env_local_scale', 'BuiltEnvInterface_env_medium', 'BuiltEnvInterface_env_package', 'BuiltEnvInterface_escalator', 'BuiltEnvInterface_exp_duct', 'BuiltEnvInterface_exp_pipe', 'BuiltEnvInterface_experimental_factor', 'BuiltEnvInterface_ext_door', 'BuiltEnvInterface_ext_wall_orient', 'BuiltEnvInterface_ext_window_orient', 'BuiltEnvInterface_filter_type', 'BuiltEnvInterface_fireplace_type', 'BuiltEnvInterface_floor_age', 'BuiltEnvInterface_floor_area', 'BuiltEnvInterface_floor_cond', 'BuiltEnvInterface_floor_count', 'BuiltEnvInterface_floor_finish_mat', 'BuiltEnvInterface_floor_struc', 'BuiltEnvInterface_floor_thermal_mass', 'BuiltEnvInterface_floor_water_mold', 'BuiltEnvInterface_freq_clean', 'BuiltEnvInterface_freq_cook', 'BuiltEnvInterface_furniture', 'BuiltEnvInterface_gender_restroom', 'BuiltEnvInterface_geo_loc_name', 'BuiltEnvInterface_hall_count', 'BuiltEnvInterface_handidness', 'BuiltEnvInterface_heat_cool_type', 'BuiltEnvInterface_heat_deliv_loc', 'BuiltEnvInterface_heat_sys_deliv_meth', 'BuiltEnvInterface_heat_system_id', 'BuiltEnvInterface_height_carper_fiber', 'BuiltEnvInterface_horizon_meth', 'BuiltEnvInterface_indoor_space', 'BuiltEnvInterface_indoor_surf', 'BuiltEnvInterface_inside_lux', 'BuiltEnvInterface_int_wall_cond', 'BuiltEnvInterface_last_clean', 'BuiltEnvInterface_lat_lon', 'BuiltEnvInterface_light_type', 'BuiltEnvInterface_max_occup', 'BuiltEnvInterface_mech_struc', 'BuiltEnvInterface_number_pets', 'BuiltEnvInterface_number_plants', 'BuiltEnvInterface_number_resident', 'BuiltEnvInterface_occup_density_samp', 'BuiltEnvInterface_occup_document', 'BuiltEnvInterface_occup_samp', 'BuiltEnvInterface_organism_count', 'BuiltEnvInterface_pres_animal_insect', 'BuiltEnvInterface_quad_pos', 'BuiltEnvInterface_rel_air_humidity', 'BuiltEnvInterface_rel_humidity_out', 'BuiltEnvInterface_rel_samp_loc', 'BuiltEnvInterface_room_air_exch_rate', 'BuiltEnvInterface_room_architec_elem', 'BuiltEnvInterface_room_condt', 'BuiltEnvInterface_room_connected', 'BuiltEnvInterface_room_count', 'BuiltEnvInterface_room_dim', 'BuiltEnvInterface_room_door_dist', 'BuiltEnvInterface_room_door_share', 'BuiltEnvInterface_room_hallway', 'BuiltEnvInterface_room_loc', 'BuiltEnvInterface_room_moist_dam_hist', 'BuiltEnvInterface_room_net_area', 'BuiltEnvInterface_room_occup', 'BuiltEnvInterface_room_samp_pos', 'BuiltEnvInterface_room_type', 'BuiltEnvInterface_room_vol', 'BuiltEnvInterface_room_wall_share', 'BuiltEnvInterface_room_window_count', 'BuiltEnvInterface_samp_floor', 'BuiltEnvInterface_samp_room_id', 'BuiltEnvInterface_samp_sort_meth', 'BuiltEnvInterface_samp_time_out', 'BuiltEnvInterface_samp_weather', 'BuiltEnvInterface_season', 'BuiltEnvInterface_season_use', 'BuiltEnvInterface_shad_dev_water_mold', 'BuiltEnvInterface_shading_device_cond', 'BuiltEnvInterface_shading_device_loc', 'BuiltEnvInterface_shading_device_mat', 'BuiltEnvInterface_shading_device_type', 'BuiltEnvInterface_size_frac', 'BuiltEnvInterface_space_typ_state', 'BuiltEnvInterface_specific', 'BuiltEnvInterface_specific_ecosystem', 'BuiltEnvInterface_specific_humidity', 'BuiltEnvInterface_substructure_type', 'BuiltEnvInterface_surf_air_cont', 'BuiltEnvInterface_surf_humidity', 'BuiltEnvInterface_surf_material', 'BuiltEnvInterface_surf_moisture', 'BuiltEnvInterface_surf_moisture_ph', 'BuiltEnvInterface_surf_temp', 'BuiltEnvInterface_temp', 'BuiltEnvInterface_temp_out', 'BuiltEnvInterface_train_line', 'BuiltEnvInterface_train_stat_loc', 'BuiltEnvInterface_train_stop_loc', 'BuiltEnvInterface_typ_occup_density', 'BuiltEnvInterface_ventilation_type', 'BuiltEnvInterface_vis_media', 'BuiltEnvInterface_wall_area', 'BuiltEnvInterface_wall_const_type', 'BuiltEnvInterface_wall_finish_mat', 'BuiltEnvInterface_wall_height', 'BuiltEnvInterface_wall_loc', 'BuiltEnvInterface_wall_surf_treatment', 'BuiltEnvInterface_wall_texture', 'BuiltEnvInterface_wall_thermal_mass', 'BuiltEnvInterface_wall_water_mold', 'BuiltEnvInterface_water_feat_size', 'BuiltEnvInterface_water_feat_type', 'BuiltEnvInterface_weekday', 'BuiltEnvInterface_window_cond', 'BuiltEnvInterface_window_cover', 'BuiltEnvInterface_window_horiz_pos', 'BuiltEnvInterface_window_loc', 'BuiltEnvInterface_window_mat', 'BuiltEnvInterface_window_open_freq', 'BuiltEnvInterface_window_size', 'BuiltEnvInterface_window_status', 'BuiltEnvInterface_window_type', 'BuiltEnvInterface_window_vert_pos', 'BuiltEnvInterface_window_water_mold', 'BuiltEnvInterface_oxy_stat_samp', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'abs_air_humidity': SlotDefinition(name='abs_air_humidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per gram, kilogram per kilogram, kilogram, pound', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Actual mass of water vapor - mh20 - present in the air water vapor mixture', alt_descriptions={}, title='absolute air humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='9 gram per gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['absolute air humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=61, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000122', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'address': SlotDefinition(name='address', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The street name and building number where the sampling occurred.', alt_descriptions={}, title='address', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['address'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=62, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer}{text}', singular_name=None, domain=None, slot_uri='MIXS:0000218', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'adj_room': SlotDefinition(name='adj_room', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='room name;room number', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of rooms (room number, room name) immediately adjacent to the sampling room', alt_descriptions={}, title='adjacent rooms', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['adjacent rooms'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=63, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{integer}', singular_name=None, domain=None, slot_uri='MIXS:0000219', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aero_struc': SlotDefinition(name='aero_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together', alt_descriptions={}, title='aerospace structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='plane', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aerospace structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=64, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[plane|glider]', singular_name=None, domain=None, slot_uri='MIXS:0000773', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'air_temp': SlotDefinition(name='air_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature of the air at the time of sampling', alt_descriptions={}, title='air temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='20 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['air temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=65, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000124', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alt': SlotDefinition(name='alt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description=\"Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air\", alt_descriptions={}, title='altitude', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['altitude'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000094', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'amount_light': SlotDefinition(name='amount_light', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='lux, lumens per square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The unit of illuminance and luminous emittance, measuring luminous flux per unit area', alt_descriptions={}, title='amount of light', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount of light'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=66, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000140', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'arch_struc': SlotDefinition(name='arch_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='An architectural structure is a human-made, free-standing, immobile outdoor construction', alt_descriptions={}, title='architectural structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='shed', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['architectural structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=67, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000774', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='arch_struc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'avg_dew_point': SlotDefinition(name='avg_dew_point', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day', alt_descriptions={}, title='average dew point', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25.5 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['average dew point'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=68, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000141', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'avg_occup': SlotDefinition(name='avg_occup', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room.', alt_descriptions={}, title='average daily occupancy', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['average daily occupancy'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=69, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000775', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'avg_temp': SlotDefinition(name='avg_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day', alt_descriptions={}, title='average temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='12.5 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['average temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=70, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000142', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bathroom_count': SlotDefinition(name='bathroom_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of bathrooms in the building', alt_descriptions={}, title='bathroom count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bathroom count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=71, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000776', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bedroom_count': SlotDefinition(name='bedroom_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of bedrooms in the building', alt_descriptions={}, title='bedroom count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bedroom count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=72, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000777', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'build_docs': SlotDefinition(name='build_docs', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The building design, construction and operation documents', alt_descriptions={}, title='design, construction, and operation documents', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='maintenance plans', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['design, construction, and operation documents'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=73, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000787', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='build_docs_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'build_occup_type': SlotDefinition(name='build_occup_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='The primary function for which a building or discrete part of a building is intended to be used', alt_descriptions={}, title='building occupancy type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='market', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['building occupancy type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=74, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000761', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='build_occup_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'building_setting': SlotDefinition(name='building_setting', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A location (geography) where a building is set', alt_descriptions={}, title='building setting', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='rural', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['building setting'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=75, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000768', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='building_setting_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'built_struc_age': SlotDefinition(name='built_struc_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='year', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The age of the built structure since construction', alt_descriptions={}, title='built structure age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['built structure age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=76, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000145', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'built_struc_set': SlotDefinition(name='built_struc_set', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The characterization of the location of the built structure as high or low human density', alt_descriptions={}, title='built structure setting', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='rural', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['built structure setting'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=77, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[urban|rural]', singular_name=None, domain=None, slot_uri='MIXS:0000778', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'built_struc_type': SlotDefinition(name='built_struc_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A physical structure that is a body or assemblage of bodies in space to form a system capable of supporting loads', alt_descriptions={}, title='built structure type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['built structure type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=78, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000721', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_dioxide': SlotDefinition(name='carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Carbon dioxide (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='410 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=50, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000097', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_area': SlotDefinition(name='ceil_area', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The area of the ceiling space within the room', alt_descriptions={}, title='ceiling area', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 square meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling area'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=79, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000148', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_cond': SlotDefinition(name='ceil_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The physical condition of the ceiling at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas', alt_descriptions={}, title='ceiling condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='damaged', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=80, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000779', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ceil_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_finish_mat': SlotDefinition(name='ceil_finish_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of material used to finish a ceiling', alt_descriptions={}, title='ceiling finish material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='stucco', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling finish material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=81, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000780', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ceil_finish_mat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_struc': SlotDefinition(name='ceil_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The construction format of the ceiling', alt_descriptions={}, title='ceiling structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='concrete', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=82, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[wood frame|concrete]', singular_name=None, domain=None, slot_uri='MIXS:0000782', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_texture': SlotDefinition(name='ceil_texture', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The feel, appearance, or consistency of a ceiling surface', alt_descriptions={}, title='ceiling texture', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='popcorn', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling texture'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=83, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000783', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ceil_texture_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_thermal_mass': SlotDefinition(name='ceil_thermal_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='joule per degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The ability of the ceiling to provide inertia against temperature fluctuations. Generally this means concrete that is exposed. A metal deck that supports a concrete slab will act thermally as long as it is exposed to room air flow', alt_descriptions={}, title='ceiling thermal mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling thermal mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=84, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000143', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_type': SlotDefinition(name='ceil_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"The type of ceiling according to the ceiling's appearance or construction\", alt_descriptions={}, title='ceiling type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='coffered', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=85, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000784', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ceil_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ceil_water_mold': SlotDefinition(name='ceil_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew on the ceiling', alt_descriptions={}, title='ceiling signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='presence of mold visible', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ceiling signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=86, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[presence of mold visible|no presence of mold visible]', singular_name=None, domain=None, slot_uri='MIXS:0000781', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'cool_syst_id': SlotDefinition(name='cool_syst_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='unique identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The cooling system identifier', alt_descriptions={}, title='cooling system identifier', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='12345', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['cooling system identifier'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=87, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000785', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'date_last_rain': SlotDefinition(name='date_last_rain', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The date of the last time it rained', alt_descriptions={}, title='date last rain', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2018-05-11:T14:30Z', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['date last rain'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=88, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000786', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dew_point': SlotDefinition(name='dew_point', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The temperature to which a given parcel of humid air must be cooled, at constant barometric pressure, for water vapor to condense into water.', alt_descriptions={}, title='dew point', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='22 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dew point'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=89, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000129', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_comp_type': SlotDefinition(name='door_comp_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The composite type of the door', alt_descriptions={}, title='door type, composite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='revolving', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door type, composite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=90, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000795', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_comp_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_cond': SlotDefinition(name='door_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The phsical condition of the door', alt_descriptions={}, title='door condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='new', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=91, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000788', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_direct': SlotDefinition(name='door_direct', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The direction the door opens', alt_descriptions={}, title='door direction of opening', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='inward', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door direction of opening'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=92, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000789', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_direct_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_loc': SlotDefinition(name='door_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The relative location of the door in the room', alt_descriptions={}, title='door location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='north', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=93, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000790', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_mat': SlotDefinition(name='door_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The material the door is composed of', alt_descriptions={}, title='door material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wood', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=94, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000791', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_mat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_move': SlotDefinition(name='door_move', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of movement of the door', alt_descriptions={}, title='door movement', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='swinging', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door movement'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=95, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000792', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_move_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_size': SlotDefinition(name='door_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The size of the door', alt_descriptions={}, title='door area or size', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 square meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door area or size'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=96, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000158', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_type': SlotDefinition(name='door_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of door material', alt_descriptions={}, title='door type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wooden', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=97, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000794', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_type_metal': SlotDefinition(name='door_type_metal', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of metal door', alt_descriptions={}, title='door type, metal', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='hollow', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door type, metal'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=98, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000796', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_type_metal_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_type_wood': SlotDefinition(name='door_type_wood', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of wood door', alt_descriptions={}, title='door type, wood', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='battened', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door type, wood'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=99, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000797', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='door_type_wood_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'door_water_mold': SlotDefinition(name='door_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew on a door', alt_descriptions={}, title='door signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='presence of mold visible', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['door signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=100, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[presence of mold visible|no presence of mold visible]', singular_name=None, domain=None, slot_uri='MIXS:0000793', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'drawings': SlotDefinition(name='drawings', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents', alt_descriptions={}, title='drawings', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='sketch', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['drawings'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=101, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000798', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='drawings_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elevator': SlotDefinition(name='elevator', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of elevators within the built structure', alt_descriptions={}, title='elevator count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['elevator count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=102, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000799', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'escalator': SlotDefinition(name='escalator', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of escalators within the built structure', alt_descriptions={}, title='escalator count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['escalator count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=103, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000800', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'exp_duct': SlotDefinition(name='exp_duct', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The amount of exposed ductwork in the room', alt_descriptions={}, title='exposed ductwork', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['exposed ductwork'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=104, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000144', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'exp_pipe': SlotDefinition(name='exp_pipe', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of exposed pipes in the room', alt_descriptions={}, title='exposed pipes', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['exposed pipes'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=105, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000220', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ext_door': SlotDefinition(name='ext_door', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of exterior doors in the built structure', alt_descriptions={}, title='exterior door count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['exterior door count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=106, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000170', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ext_wall_orient': SlotDefinition(name='ext_wall_orient', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The orientation of the exterior wall', alt_descriptions={}, title='orientations of exterior wall', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='northwest', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['orientations of exterior wall'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=107, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000817', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ext_wall_orient_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ext_window_orient': SlotDefinition(name='ext_window_orient', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The compass direction the exterior window of the room is facing', alt_descriptions={}, title='orientations of exterior window', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='southwest', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['orientations of exterior window'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=108, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000818', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='ext_window_orient_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'filter_type': SlotDefinition(name='filter_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='A device which removes solid particulates or airborne molecular contaminants', alt_descriptions={}, title='filter type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='HEPA', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['filter type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=109, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000765', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='filter_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fireplace_type': SlotDefinition(name='fireplace_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A firebox with chimney', alt_descriptions={}, title='fireplace type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wood burning', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['fireplace type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=110, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[gas burning|wood burning]', singular_name=None, domain=None, slot_uri='MIXS:0000802', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_age': SlotDefinition(name='floor_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='years, weeks, days', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The time period since installment of the carpet or flooring', alt_descriptions={}, title='floor age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=111, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000164', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_area': SlotDefinition(name='floor_area', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The area of the floor space within the room', alt_descriptions={}, title='floor area', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor area'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=112, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000165', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_cond': SlotDefinition(name='floor_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas', alt_descriptions={}, title='floor condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='new', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=113, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000803', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='floor_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_count': SlotDefinition(name='floor_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of floors in the building, including basements and mechanical penthouse', alt_descriptions={}, title='floor count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=114, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_finish_mat': SlotDefinition(name='floor_finish_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The floor covering type; the finished surface that is walked on', alt_descriptions={}, title='floor finish material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='carpet', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor finish material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=115, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000804', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='floor_finish_mat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_struc': SlotDefinition(name='floor_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Refers to the structural elements and subfloor upon which the finish flooring is installed', alt_descriptions={}, title='floor structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='concrete', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=116, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000806', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='floor_struc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_thermal_mass': SlotDefinition(name='floor_thermal_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='joule per degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The ability of the floor to provide inertia against temperature fluctuations', alt_descriptions={}, title='floor thermal mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor thermal mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=117, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000166', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'floor_water_mold': SlotDefinition(name='floor_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew in a room', alt_descriptions={}, title='floor signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='ceiling discoloration', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['floor signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=118, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000805', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='floor_water_mold_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'freq_clean': SlotDefinition(name='freq_clean', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration or {text}', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of times the sample location is cleaned. Frequency of cleaning might be on a Daily basis, Weekly, Monthly, Quarterly or Annually.', alt_descriptions={}, title='frequency of cleaning', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['frequency of cleaning'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=119, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000226', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'freq_cook': SlotDefinition(name='freq_cook', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of times a meal is cooked per week', alt_descriptions={}, title='frequency of cooking', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['frequency of cooking'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=120, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000227', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'furniture': SlotDefinition(name='furniture', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The types of furniture present in the sampled room', alt_descriptions={}, title='furniture', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='chair', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['furniture'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=121, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000807', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='furniture_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gender_restroom': SlotDefinition(name='gender_restroom', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The gender type of the restroom', alt_descriptions={}, title='gender of restroom', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='male', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['gender of restroom'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=122, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000808', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='gender_restroom_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hall_count': SlotDefinition(name='hall_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total count of hallways and cooridors in the built structure', alt_descriptions={}, title='hallway/corridor count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hallway/corridor count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=123, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000228', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'handidness': SlotDefinition(name='handidness', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The handidness of the individual sampled', alt_descriptions={}, title='handidness', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='right handedness', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['handidness'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=124, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000809', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='handidness_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heat_cool_type': SlotDefinition(name='heat_cool_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Methods of conditioning or heating a room or building', alt_descriptions={}, title='heating and cooling system type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='heat pump', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['heating and cooling system type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=125, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000766', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='heat_cool_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heat_deliv_loc': SlotDefinition(name='heat_deliv_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The location of heat delivery within the room', alt_descriptions={}, title='heating delivery locations', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='north', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['heating delivery locations'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=126, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000810', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='heat_deliv_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heat_sys_deliv_meth': SlotDefinition(name='heat_sys_deliv_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The method by which the heat is delivered through the system', alt_descriptions={}, title='heating system delivery method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='radiant', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['heating system delivery method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=127, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[conductive|radiant]', singular_name=None, domain=None, slot_uri='MIXS:0000812', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heat_system_id': SlotDefinition(name='heat_system_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='unique identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The heating system identifier', alt_descriptions={}, title='heating system identifier', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['heating system identifier'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=128, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000833', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'height_carper_fiber': SlotDefinition(name='height_carper_fiber', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The average carpet fiber height in the indoor environment', alt_descriptions={}, title='height carpet fiber mat', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['height carpet fiber mat'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=129, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000167', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'indoor_space': SlotDefinition(name='indoor_space', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A distinguishable space within a structure, the purpose for which discrete areas of a building is used', alt_descriptions={}, title='indoor space', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='foyer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['indoor space'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=130, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000763', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='indoor_space_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'indoor_surf': SlotDefinition(name='indoor_surf', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Type of indoor surface', alt_descriptions={}, title='indoor surface', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wall', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['indoor surface'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=131, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000764', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='indoor_surf_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'inside_lux': SlotDefinition(name='inside_lux', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilowatt per square metre', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The recorded value at sampling time (power density)', alt_descriptions={}, title='inside lux light', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['inside lux light'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=132, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000168', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'int_wall_cond': SlotDefinition(name='int_wall_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The physical condition of the wall at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas', alt_descriptions={}, title='interior wall condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='damaged', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['interior wall condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=133, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000813', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='int_wall_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'last_clean': SlotDefinition(name='last_clean', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The last time the floor was cleaned (swept, mopped, vacuumed)', alt_descriptions={}, title='last time swept/mopped/vacuumed', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2018-05-11:T14:30Z', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['last time swept/mopped/vacuumed'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=134, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000814', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'light_type': SlotDefinition(name='light_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Application of light to achieve some practical or aesthetic effect. Lighting includes the use of both artificial light sources such as lamps and light fixtures, as well as natural illumination by capturing daylight. Can also include absence of light', alt_descriptions={}, title='light type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='desk lamp', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['light type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=135, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000769', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='light_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'max_occup': SlotDefinition(name='max_occup', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The maximum amount of people allowed in the indoor environment', alt_descriptions={}, title='maximum occupancy', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['maximum occupancy'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=136, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000229', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mech_struc': SlotDefinition(name='mech_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='mechanical structure: a moving structure', alt_descriptions={}, title='mechanical structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='elevator', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mechanical structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=137, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000815', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='mech_struc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'number_pets': SlotDefinition(name='number_pets', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of pets residing in the sampled space', alt_descriptions={}, title='number of pets', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['number of pets'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=138, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000231', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'number_plants': SlotDefinition(name='number_plants', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of plant(s) in the sampling space', alt_descriptions={}, title='number of houseplants', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['number of houseplants'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=139, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000230', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'number_resident': SlotDefinition(name='number_resident', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of individuals currently occupying in the sampling location', alt_descriptions={}, title='number of residents', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['number of residents'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=140, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000232', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'occup_density_samp': SlotDefinition(name='occup_density_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Average number of occupants at time of sampling per square footage', alt_descriptions={}, title='occupant density at sampling', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['occupant density at sampling'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=141, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000217', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'occup_document': SlotDefinition(name='occup_document', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of documentation of occupancy', alt_descriptions={}, title='occupancy documentation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='estimate', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['occupancy documentation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=142, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000816', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='occup_document_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'occup_samp': SlotDefinition(name='occup_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Number of occupants present at time of sample within the given space', alt_descriptions={}, title='occupancy at sampling', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['occupancy at sampling'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=143, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000772', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pres_animal_insect': SlotDefinition(name='pres_animal_insect', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration;count', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type and number of animals or insects present in the sampling space.', alt_descriptions={}, title='presence of pets, animals, or insects', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='cat;5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['presence of pets, animals, or insects'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=144, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000819', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(cat|dog|rodent|snake|other);\\\\d+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'quad_pos': SlotDefinition(name='quad_pos', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The quadrant position of the sampling room within the building', alt_descriptions={}, title='quadrant position', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='West side', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['quadrant position'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=145, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000820', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='quad_pos_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rel_air_humidity': SlotDefinition(name='rel_air_humidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Partial vapor and air pressure, density of the vapor and air, or by the actual mass of the vapor and air', alt_descriptions={}, title='relative air humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='80%', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['relative air humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=146, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000121', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rel_humidity_out': SlotDefinition(name='rel_humidity_out', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram of air, kilogram of air', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The recorded outside relative humidity value at the time of sampling', alt_descriptions={}, title='outside relative humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='12 per kilogram of air', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['outside relative humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=147, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000188', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rel_samp_loc': SlotDefinition(name='rel_samp_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The sampling location within the train car', alt_descriptions={}, title='relative sampling location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='center of car', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['relative sampling location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=148, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000821', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='rel_samp_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_air_exch_rate': SlotDefinition(name='room_air_exch_rate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The rate at which outside air replaces indoor air in a given space', alt_descriptions={}, title='room air exchange rate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room air exchange rate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=149, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000169', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_architec_elem': SlotDefinition(name='room_architec_elem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The unique details and component parts that, together, form the architecture of a distinguisahable space within a built structure', alt_descriptions={}, title='room architectural elements', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room architectural elements'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=150, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000233', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_condt': SlotDefinition(name='room_condt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The condition of the room at the time of sampling', alt_descriptions={}, title='room condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='new', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=151, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000822', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='room_condt_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_connected': SlotDefinition(name='room_connected', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of rooms connected to the sampling room by a doorway', alt_descriptions={}, title='rooms connected by a doorway', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='office', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooms connected by a doorway'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=152, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000826', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='room_connected_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_count': SlotDefinition(name='room_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total count of rooms in the built structure including all room types', alt_descriptions={}, title='room count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=153, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000234', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_dim': SlotDefinition(name='room_dim', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The length, width and height of sampling room', alt_descriptions={}, title='room dimensions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room dimensions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=154, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer} {unit} x {integer} {unit} x {integer} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000192', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_door_dist': SlotDefinition(name='room_door_dist', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Distance between doors (meters) in the hallway between the sampling room and adjacent rooms', alt_descriptions={}, title='room door distance', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room door distance'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=155, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000193', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_door_share': SlotDefinition(name='room_door_share', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='room name;room number', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of room(s) (room number, room name) sharing a door with the sampling room', alt_descriptions={}, title='rooms that share a door with sampling room', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooms that share a door with sampling room'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=156, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{integer}', singular_name=None, domain=None, slot_uri='MIXS:0000242', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_hallway': SlotDefinition(name='room_hallway', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='room name;room number', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of room(s) (room number, room name) located in the same hallway as sampling room', alt_descriptions={}, title='rooms that are on the same hallway', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooms that are on the same hallway'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=157, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{integer}', singular_name=None, domain=None, slot_uri='MIXS:0000238', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_loc': SlotDefinition(name='room_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The position of the room within the building', alt_descriptions={}, title='room location in building', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='interior room', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room location in building'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=158, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000823', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='room_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_moist_dam_hist': SlotDefinition(name='room_moist_dam_hist', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The history of moisture damage or mold in the past 12 months. Number of events of moisture damage or mold observed', alt_descriptions={}, title='room moisture damage or mold history', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room moisture damage or mold history'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=159, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000235', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='integer', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_net_area': SlotDefinition(name='room_net_area', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square feet, square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The net floor area of sampling room. Net area excludes wall thicknesses', alt_descriptions={}, title='room net area', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room net area'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=160, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000194', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_occup': SlotDefinition(name='room_occup', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Count of room occupancy at time of sampling', alt_descriptions={}, title='room occupancy', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room occupancy'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=161, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000236', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_samp_pos': SlotDefinition(name='room_samp_pos', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The horizontal sampling position in the room relative to architectural elements', alt_descriptions={}, title='room sampling position', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='south corner', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room sampling position'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=162, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000824', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='room_samp_pos_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_type': SlotDefinition(name='room_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The main purpose or activity of the sampling room. A room is any distinguishable space within a structure', alt_descriptions={}, title='room type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='bathroom', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=163, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000825', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='room_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_vol': SlotDefinition(name='room_vol', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic feet, cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Volume of sampling room', alt_descriptions={}, title='room volume', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room volume'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=164, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000195', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_wall_share': SlotDefinition(name='room_wall_share', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='room name;room number', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of room(s) (room number, room name) sharing a wall with the sampling room', alt_descriptions={}, title='rooms that share a wall with sampling room', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooms that share a wall with sampling room'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=165, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{integer}', singular_name=None, domain=None, slot_uri='MIXS:0000243', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'room_window_count': SlotDefinition(name='room_window_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Number of windows in the room', alt_descriptions={}, title='room window count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['room window count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=166, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000237', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='integer', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_floor': SlotDefinition(name='samp_floor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The floor of the building, where the sampling room is located', alt_descriptions={}, title='sampling floor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4th floor', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sampling floor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=167, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000828', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_floor_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_room_id': SlotDefinition(name='samp_room_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sampling room number. This ID should be consistent with the designations on the building floor plans', alt_descriptions={}, title='sampling room ID or name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sampling room ID or name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=168, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000244', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_sort_meth': SlotDefinition(name='samp_sort_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='description of method', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor.', alt_descriptions={}, title='sample size sorting method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample size sorting method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=169, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000216', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_time_out': SlotDefinition(name='samp_time_out', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='time', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The recent and long term history of outside sampling', alt_descriptions={}, title='sampling time outside', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sampling time outside'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=170, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000196', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_weather': SlotDefinition(name='samp_weather', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The weather on the sampling day', alt_descriptions={}, title='sampling day weather', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='foggy', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sampling day weather'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=171, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000827', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_weather_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'season': SlotDefinition(name='season', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='NCIT:C94729', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729).', alt_descriptions={}, title='season', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='autumn [NCIT:C94733]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['season'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=172, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000829', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'season_use': SlotDefinition(name='season_use', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The seasons the space is occupied', alt_descriptions={}, title='seasonal use', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Winter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['seasonal use'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=173, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000830', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='season_use_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'shad_dev_water_mold': SlotDefinition(name='shad_dev_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew on the shading device', alt_descriptions={}, title='shading device signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='no presence of mold visible', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['shading device signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=174, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[presence of mold visible|no presence of mold visible]', singular_name=None, domain=None, slot_uri='MIXS:0000834', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'shading_device_cond': SlotDefinition(name='shading_device_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The physical condition of the shading device at the time of sampling', alt_descriptions={}, title='shading device condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='new', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['shading device condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=175, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000831', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='shading_device_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'shading_device_loc': SlotDefinition(name='shading_device_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The location of the shading device in relation to the built structure', alt_descriptions={}, title='shading device location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='exterior', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['shading device location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=176, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[exterior|interior]', singular_name=None, domain=None, slot_uri='MIXS:0000832', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'shading_device_mat': SlotDefinition(name='shading_device_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='material name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The material the shading device is composed of', alt_descriptions={}, title='shading device material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['shading device material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=177, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000245', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'shading_device_type': SlotDefinition(name='shading_device_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of shading device', alt_descriptions={}, title='shading device type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='slatted aluminum awning', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['shading device type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=178, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000835', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='shading_device_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'space_typ_state': SlotDefinition(name='space_typ_state', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Customary or normal state of the space', alt_descriptions={}, title='space typical state', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='typically occupied', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['space typical state'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=179, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[typically occupied|typically unoccupied]', singular_name=None, domain=None, slot_uri='MIXS:0000770', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific': SlotDefinition(name='specific', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents', alt_descriptions={}, title='specifications', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='construction', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['specifications'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=180, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000836', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='specific_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_humidity': SlotDefinition(name='specific_humidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram of air, kilogram of air', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The mass of water vapour in a unit mass of moist air, usually expressed as grams of vapour per kilogram of air, or, in air conditioning, as grains per pound.', alt_descriptions={}, title='specific humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15 per kilogram of air', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['specific humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=181, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000214', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'substructure_type': SlotDefinition(name='substructure_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='The substructure or under building is that largely hidden section of the building which is built off the foundations to the ground floor level', alt_descriptions={}, title='substructure type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='basement', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['substructure type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=182, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000767', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='substructure_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_air_cont': SlotDefinition(name='surf_air_cont', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Contaminant identified on surface', alt_descriptions={}, title='surface-air contaminant', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='radon', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface-air contaminant'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=183, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000759', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='surf_air_cont_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_humidity': SlotDefinition(name='surf_humidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Surfaces: water activity as a function of air and material moisture', alt_descriptions={}, title='surface humidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10%', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface humidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=184, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000123', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_material': SlotDefinition(name='surf_material', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Surface materials at the point of sampling', alt_descriptions={}, title='surface material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wood', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=185, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000758', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='surf_material_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_moisture': SlotDefinition(name='surf_moisture', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='parts per million, gram per cubic meter, gram per square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Water held on a surface', alt_descriptions={}, title='surface moisture', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.01 gram per square meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface moisture'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=186, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000128', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_moisture_ph': SlotDefinition(name='surf_moisture_ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='ph measurement of surface', alt_descriptions={}, title='surface moisture pH', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='7', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface moisture pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=187, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000760', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='double', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'surf_temp': SlotDefinition(name='surf_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature of the surface at the time of sampling', alt_descriptions={}, title='surface temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['surface temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=188, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000125', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp_out': SlotDefinition(name='temp_out', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The recorded temperature value at sampling time outside', alt_descriptions={}, title='temperature outside house', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature outside house'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=189, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000197', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'train_line': SlotDefinition(name='train_line', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The subway line name', alt_descriptions={}, title='train line', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='red', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['train line'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=190, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000837', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='train_line_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'train_stat_loc': SlotDefinition(name='train_stat_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The train station collection location', alt_descriptions={}, title='train station collection location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='forest hills', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['train station collection location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=191, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000838', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='train_stat_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'train_stop_loc': SlotDefinition(name='train_stop_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The train stop collection location', alt_descriptions={}, title='train stop collection location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='end', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['train stop collection location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=192, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000839', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='train_stop_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'typ_occup_density': SlotDefinition(name='typ_occup_density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Customary or normal density of occupants', alt_descriptions={}, title='typical occupant density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['typical occupant density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=193, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000771', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='double', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ventilation_type': SlotDefinition(name='ventilation_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='ventilation type name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ventilation system used in the sampled premises', alt_descriptions={}, title='ventilation type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Operable windows', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ventilation type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=57, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000756', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'vis_media': SlotDefinition(name='vis_media', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The building visual media', alt_descriptions={}, title='visual media', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='3D scans', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['visual media'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=194, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000840', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='vis_media_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_area': SlotDefinition(name='wall_area', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"The total area of the sampled room's walls\", alt_descriptions={}, title='wall area', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall area'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=195, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000198', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_const_type': SlotDefinition(name='wall_const_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The building class of the wall defined by the composition of the building elements and fire-resistance rating.', alt_descriptions={}, title='wall construction type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='fire resistive', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall construction type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=196, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000841', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='wall_const_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_finish_mat': SlotDefinition(name='wall_finish_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The material utilized to finish the outer most layer of the wall', alt_descriptions={}, title='wall finish material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wood', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall finish material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=197, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000842', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='wall_finish_mat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_height': SlotDefinition(name='wall_height', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The average height of the walls in the sampled room', alt_descriptions={}, title='wall height', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall height'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=198, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000221', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_loc': SlotDefinition(name='wall_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The relative location of the wall within the room', alt_descriptions={}, title='wall location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='north', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=199, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000843', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='wall_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_surf_treatment': SlotDefinition(name='wall_surf_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The surface treatment of interior wall', alt_descriptions={}, title='wall surface treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='paneling', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall surface treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=200, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000845', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='wall_surf_treatment_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_texture': SlotDefinition(name='wall_texture', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The feel, appearance, or consistency of a wall surface', alt_descriptions={}, title='wall texture', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='popcorn', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall texture'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=201, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000846', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='wall_texture_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_thermal_mass': SlotDefinition(name='wall_thermal_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='joule per degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The ability of the wall to provide inertia against temperature fluctuations. Generally this means concrete or concrete block that is either exposed or covered only with paint', alt_descriptions={}, title='wall thermal mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall thermal mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=202, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000222', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wall_water_mold': SlotDefinition(name='wall_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew on a wall', alt_descriptions={}, title='wall signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='no presence of mold visible', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wall signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=203, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[presence of mold visible|no presence of mold visible]', singular_name=None, domain=None, slot_uri='MIXS:0000844', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_feat_size': SlotDefinition(name='water_feat_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='square meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The size of the water feature', alt_descriptions={}, title='water feature size', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water feature size'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=204, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000223', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_feat_type': SlotDefinition(name='water_feat_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of water feature present within the building being sampled', alt_descriptions={}, title='water feature type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='stream', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water feature type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=205, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000847', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='water_feat_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'weekday': SlotDefinition(name='weekday', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The day of the week when sampling occurred', alt_descriptions={}, title='weekday', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Sunday', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['weekday'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=206, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000848', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='weekday_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_cond': SlotDefinition(name='window_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The physical condition of the window at the time of sampling', alt_descriptions={}, title='window condition', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='rupture', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window condition'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=207, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000849', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_cond_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_cover': SlotDefinition(name='window_cover', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of window covering', alt_descriptions={}, title='window covering', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='curtains', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window covering'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=208, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000850', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_cover_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_horiz_pos': SlotDefinition(name='window_horiz_pos', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The horizontal position of the window on the wall', alt_descriptions={}, title='window horizontal position', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='middle', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window horizontal position'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=209, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000851', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_horiz_pos_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_loc': SlotDefinition(name='window_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The relative location of the window within the room', alt_descriptions={}, title='window location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='west', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=210, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000852', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_loc_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_mat': SlotDefinition(name='window_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of material used to finish a window', alt_descriptions={}, title='window material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wood', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=211, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000853', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_mat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_open_freq': SlotDefinition(name='window_open_freq', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The number of times windows are opened per week', alt_descriptions={}, title='window open frequency', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window open frequency'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=212, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000246', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_size': SlotDefinition(name='window_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='inch, meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"The window's length and width\", alt_descriptions={}, title='window area/size', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window area/size'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=213, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit} x {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000224', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_status': SlotDefinition(name='window_status', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Defines whether the windows were open or closed during environmental testing', alt_descriptions={}, title='window status', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='open', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window status'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=214, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[closed|open]', singular_name=None, domain=None, slot_uri='MIXS:0000855', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_type': SlotDefinition(name='window_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of windows', alt_descriptions={}, title='window type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='fixed window', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=215, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000856', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_vert_pos': SlotDefinition(name='window_vert_pos', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The vertical position of the window on the wall', alt_descriptions={}, title='window vertical position', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='middle', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window vertical position'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=216, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000857', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='window_vert_pos_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'window_water_mold': SlotDefinition(name='window_water_mold', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Signs of the presence of mold or mildew on the window.', alt_descriptions={}, title='window signs of water/mold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='no presence of mold visible', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['window signs of water/mold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=217, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='[presence of mold visible|no presence of mold visible]', singular_name=None, domain=None, slot_uri='MIXS:0000854', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:BuiltEnvInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'EmslInterface': ClassDefinition(name='EmslInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EmslInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='emsl dh_interface', alt_descriptions={}, title='Emsl', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['EmslInterface_emsl_store_temp', 'EmslInterface_project_id', 'EmslInterface_replicate_number', 'EmslInterface_sample_shipped', 'EmslInterface_sample_type', 'EmslInterface_technical_reps', 'emsl_store_temp', 'project_id', 'replicate_number', 'sample_shipped', 'sample_type', 'technical_reps', 'EmslInterface_oxy_stat_samp', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'emsl_store_temp': SlotDefinition(name='emsl_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The temperature at which the sample should be stored upon delivery to EMSL', alt_descriptions={}, title='EMSL sample storage temperature, deg. C', deprecated=None, todos=[\"add 'see_alsos' with link to NEXUS info\"], notes=[], comments=['Enter a temperature in celsius. Numeric portion only.'], examples=[Example(value='-80', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'project_id': SlotDefinition(name='project_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Proposal IDs or names associated with dataset', alt_descriptions={}, title='project ID', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'replicate_number': SlotDefinition(name='replicate_number', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='If sending biological replicates, indicate the rep number here.', alt_descriptions={}, title='replicate number', deprecated=None, todos=[], notes=[], comments=['This will guide staff in ensuring your samples are block & randomized correctly'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='integer', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_shipped': SlotDefinition(name='sample_shipped', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL.', alt_descriptions={}, title='sample shipped amount', deprecated=None, todos=[], notes=[], comments=['This field is only required when completing metadata for samples being submitted to EMSL for analyses.'], examples=[Example(value='15 g', description=None, object=None), Example(value='100 uL', description=None, object=None), Example(value='5 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_type': SlotDefinition(name='sample_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Type of sample being submitted', alt_descriptions={}, title='sample type', deprecated=None, todos=[], notes=[], comments=[\"This can vary from 'environmental package' if the sample is an extraction.\"], examples=[Example(value='water extracted soil', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sample_type_enum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'technical_reps': SlotDefinition(name='technical_reps', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='If sending technical replicates of the same sample, indicate the replicate count.', alt_descriptions={}, title='number technical replicate', deprecated=None, todos=[], notes=[], comments=['This field is only required when completing metadata for samples being submitted to EMSL for analyses.'], examples=[Example(value='2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='emsl_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='integer', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:EmslInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'HcrCoresInterface': ClassDefinition(name='HcrCoresInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HcrCoresInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='hcr_cores dh_interface', alt_descriptions={}, title='Hcr Cores', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['additional_info', 'alkalinity', 'alkalinity_method', 'ammonium', 'api', 'aromatics_pc', 'asphaltenes_pc', 'basin', 'benzene', 'calcium', 'chem_administration', 'chloride', 'collection_date', 'density', 'depos_env', 'depth', 'diss_carb_dioxide', 'diss_inorg_carb', 'diss_inorg_phosp', 'diss_iron', 'diss_org_carb', 'diss_oxygen_fluid', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'ethylbenzene', 'experimental_factor', 'field', 'geo_loc_name', 'hc_produced', 'hcr', 'hcr_fw_salinity', 'hcr_geol_age', 'hcr_pressure', 'hcr_temp', 'horizon_meth', 'lat_lon', 'lithology', 'magnesium', 'misc_param', 'nitrate', 'nitrite', 'org_count_qpcr_info', 'organism_count', 'owc_tvdss', 'oxy_stat_samp', 'permeability', 'ph', 'ph_meth', 'porosity', 'potassium', 'pour_point', 'pressure', 'reservoir', 'resins_pc', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_md', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'samp_subtype', 'samp_transport_cond', 'samp_tvdss', 'samp_type', 'samp_well_name', 'HcrCoresInterface_sample_link', 'saturates_pc', 'size_frac', 'sodium', 'specific_ecosystem', 'sr_dep_env', 'sr_geol_age', 'sr_kerog_type', 'sr_lithology', 'sulfate', 'sulfate_fw', 'sulfide', 'suspend_solids', 'tan', 'temp', 'toluene', 'tot_iron', 'tot_nitro', 'tot_phosp', 'tot_sulfur', 'tvdss_of_hcr_press', 'tvdss_of_hcr_temp', 'vfa', 'vfa_fw', 'viscosity', 'win', 'xylene', 'HcrCoresInterface_additional_info', 'HcrCoresInterface_alkalinity', 'HcrCoresInterface_alkalinity_method', 'HcrCoresInterface_ammonium', 'HcrCoresInterface_api', 'HcrCoresInterface_aromatics_pc', 'HcrCoresInterface_asphaltenes_pc', 'HcrCoresInterface_basin', 'HcrCoresInterface_benzene', 'HcrCoresInterface_calcium', 'HcrCoresInterface_chem_administration', 'HcrCoresInterface_chloride', 'HcrCoresInterface_collection_date', 'HcrCoresInterface_density', 'HcrCoresInterface_depos_env', 'HcrCoresInterface_depth', 'HcrCoresInterface_diss_carb_dioxide', 'HcrCoresInterface_diss_inorg_carb', 'HcrCoresInterface_diss_inorg_phosp', 'HcrCoresInterface_diss_iron', 'HcrCoresInterface_diss_org_carb', 'HcrCoresInterface_diss_oxygen_fluid', 'HcrCoresInterface_ecosystem', 'HcrCoresInterface_ecosystem_category', 'HcrCoresInterface_ecosystem_subtype', 'HcrCoresInterface_ecosystem_type', 'HcrCoresInterface_elev', 'HcrCoresInterface_env_broad_scale', 'HcrCoresInterface_env_local_scale', 'HcrCoresInterface_env_medium', 'HcrCoresInterface_env_package', 'HcrCoresInterface_ethylbenzene', 'HcrCoresInterface_experimental_factor', 'HcrCoresInterface_field', 'HcrCoresInterface_geo_loc_name', 'HcrCoresInterface_hc_produced', 'HcrCoresInterface_hcr', 'HcrCoresInterface_hcr_fw_salinity', 'HcrCoresInterface_hcr_geol_age', 'HcrCoresInterface_hcr_pressure', 'HcrCoresInterface_hcr_temp', 'HcrCoresInterface_horizon_meth', 'HcrCoresInterface_lat_lon', 'HcrCoresInterface_lithology', 'HcrCoresInterface_magnesium', 'HcrCoresInterface_misc_param', 'HcrCoresInterface_nitrate', 'HcrCoresInterface_nitrite', 'HcrCoresInterface_org_count_qpcr_info', 'HcrCoresInterface_organism_count', 'HcrCoresInterface_owc_tvdss', 'HcrCoresInterface_oxy_stat_samp', 'HcrCoresInterface_permeability', 'HcrCoresInterface_ph', 'HcrCoresInterface_ph_meth', 'HcrCoresInterface_porosity', 'HcrCoresInterface_potassium', 'HcrCoresInterface_pour_point', 'HcrCoresInterface_pressure', 'HcrCoresInterface_reservoir', 'HcrCoresInterface_resins_pc', 'HcrCoresInterface_salinity', 'HcrCoresInterface_samp_collec_device', 'HcrCoresInterface_samp_collec_method', 'HcrCoresInterface_samp_mat_process', 'HcrCoresInterface_samp_md', 'HcrCoresInterface_samp_size', 'HcrCoresInterface_samp_store_dur', 'HcrCoresInterface_samp_store_loc', 'HcrCoresInterface_samp_store_temp', 'HcrCoresInterface_samp_subtype', 'HcrCoresInterface_samp_transport_cond', 'HcrCoresInterface_samp_tvdss', 'HcrCoresInterface_samp_type', 'HcrCoresInterface_samp_well_name', 'HcrCoresInterface_saturates_pc', 'HcrCoresInterface_size_frac', 'HcrCoresInterface_sodium', 'HcrCoresInterface_specific_ecosystem', 'HcrCoresInterface_sr_dep_env', 'HcrCoresInterface_sr_geol_age', 'HcrCoresInterface_sr_kerog_type', 'HcrCoresInterface_sr_lithology', 'HcrCoresInterface_sulfate', 'HcrCoresInterface_sulfate_fw', 'HcrCoresInterface_sulfide', 'HcrCoresInterface_suspend_solids', 'HcrCoresInterface_tan', 'HcrCoresInterface_temp', 'HcrCoresInterface_toluene', 'HcrCoresInterface_tot_iron', 'HcrCoresInterface_tot_nitro', 'HcrCoresInterface_tot_phosp', 'HcrCoresInterface_tot_sulfur', 'HcrCoresInterface_tvdss_of_hcr_press', 'HcrCoresInterface_tvdss_of_hcr_temp', 'HcrCoresInterface_vfa', 'HcrCoresInterface_vfa_fw', 'HcrCoresInterface_viscosity', 'HcrCoresInterface_win', 'HcrCoresInterface_xylene', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'additional_info': SlotDefinition(name='additional_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary\", alt_descriptions={}, title='additional info', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['additional info'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=290, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000300', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkalinity_method': SlotDefinition(name='alkalinity_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='description of method', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Method used for alkalinity measurement', alt_descriptions={}, title='alkalinity method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='titration', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=218, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000298', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'api': SlotDefinition(name='api', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degrees API', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)', alt_descriptions={}, title='API gravity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['API gravity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=291, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000157', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aromatics_pc': SlotDefinition(name='aromatics_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='aromatics wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aromatics wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=292, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000133', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'asphaltenes_pc': SlotDefinition(name='asphaltenes_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='asphaltenes wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['asphaltenes wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=293, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000135', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'basin': SlotDefinition(name='basin', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the basin (e.g. Campos)', alt_descriptions={}, title='basin name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['basin name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=294, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000290', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'benzene': SlotDefinition(name='benzene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of benzene in the sample', alt_descriptions={}, title='benzene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['benzene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=295, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000153', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'density': SlotDefinition(name='density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter, gram per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Density of the sample, which is its mass per unit volume (aka volumetric mass density)', alt_descriptions={}, title='density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1000 kilogram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000435', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depos_env': SlotDefinition(name='depos_env', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='depositional environment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Continental - Alluvial', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depositional environment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=304, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000992', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='depos_env_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_phosp': SlotDefinition(name='diss_inorg_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved inorganic phosphorus in the sample', alt_descriptions={}, title='dissolved inorganic phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='56.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=224, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_iron': SlotDefinition(name='diss_iron', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved iron in the sample', alt_descriptions={}, title='dissolved iron', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved iron'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=305, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000139', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_carb': SlotDefinition(name='diss_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid', alt_descriptions={}, title='dissolved organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='197 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000433', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen_fluid': SlotDefinition(name='diss_oxygen_fluid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).', alt_descriptions={}, title='dissolved oxygen in fluids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen in fluids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=306, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000438', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ethylbenzene': SlotDefinition(name='ethylbenzene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ethylbenzene in the sample', alt_descriptions={}, title='ethylbenzene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ethylbenzene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=309, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000155', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'field': SlotDefinition(name='field', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the hydrocarbon field (e.g. Albacora)', alt_descriptions={}, title='field name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['field name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=310, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000291', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hc_produced': SlotDefinition(name='hc_produced', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon type produced', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Gas', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon type produced'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=313, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000989', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hc_produced_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr': SlotDefinition(name='hcr', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon resource type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Oil Sand', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=314, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000988', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hcr_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_fw_salinity': SlotDefinition(name='hcr_fw_salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS', alt_descriptions={}, title='formation water salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['formation water salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=315, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000406', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_geol_age': SlotDefinition(name='hcr_geol_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon resource geological age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Silurian', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource geological age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=316, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000993', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hcr_geol_age_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_pressure': SlotDefinition(name='hcr_pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere, kilopascal', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original pressure of the hydrocarbon resource', alt_descriptions={}, title='hydrocarbon resource original pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource original pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=317, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000395', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_temp': SlotDefinition(name='hcr_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original temperature of the hydrocarbon resource', alt_descriptions={}, title='hydrocarbon resource original temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='150-295 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource original temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=318, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000393', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lithology': SlotDefinition(name='lithology', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='lithology', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Volcanic', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['lithology'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=336, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000990', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='lithology_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'magnesium': SlotDefinition(name='magnesium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter, milligram per liter, parts per million, micromole per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of magnesium in the sample', alt_descriptions={}, title='magnesium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='52.8 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['magnesium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000431', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_count_qpcr_info': SlotDefinition(name='org_count_qpcr_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per gram (or ml or cm^2)', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)', alt_descriptions={}, title='organism count qPCR information', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count qPCR information'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=337, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles', singular_name=None, domain=None, slot_uri='MIXS:0000099', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'owc_tvdss': SlotDefinition(name='owc_tvdss', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Depth of the original oil water contact (OWC) zone (average) (m TVDSS)', alt_descriptions={}, title='oil water contact depth', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['oil water contact depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=339, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000405', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'permeability': SlotDefinition(name='permeability', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mD', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))', alt_descriptions={}, title='permeability', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['permeability'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=340, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{integer} - {integer} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000404', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'porosity': SlotDefinition(name='porosity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value or range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Porosity of deposited sediment is volume of voids divided by the total volume of sample', alt_descriptions={}, title='porosity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['porosity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000211', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pour_point': SlotDefinition(name='pour_point', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)', alt_descriptions={}, title='pour point', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pour point'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=341, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000127', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'reservoir': SlotDefinition(name='reservoir', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the reservoir (e.g. Carapebus)', alt_descriptions={}, title='reservoir name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['reservoir name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=347, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000303', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'resins_pc': SlotDefinition(name='resins_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='resins wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['resins wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=348, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000134', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_md': SlotDefinition(name='samp_md', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='sample measured depth', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1534 meter;MSL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample measured depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=351, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000413', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_subtype': SlotDefinition(name='samp_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='sample subtype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='biofilm', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample subtype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=354, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000999', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_subtype_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_transport_cond': SlotDefinition(name='samp_transport_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='days;degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)', alt_descriptions={}, title='sample transport conditions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 days;-20 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample transport conditions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=355, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000410', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_tvdss': SlotDefinition(name='samp_tvdss', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value or measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m', alt_descriptions={}, title='sample true vertical depth subsea', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample true vertical depth subsea'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=356, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000409', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_type': SlotDefinition(name='samp_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='GENEPIO:0001246', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).', alt_descriptions={}, title='sample type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='built environment sample [GENEPIO:0001248]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=357, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000998', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_well_name': SlotDefinition(name='samp_well_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the well (e.g. BXA1123) where sample was taken', alt_descriptions={}, title='sample well name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample well name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=358, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000296', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'saturates_pc': SlotDefinition(name='saturates_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='saturates wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['saturates wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=359, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000131', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sr_dep_env': SlotDefinition(name='sr_dep_env', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='source rock depositional environment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Marine', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['source rock depositional environment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=366, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000996', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sr_dep_env_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sr_geol_age': SlotDefinition(name='sr_geol_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='source rock geological age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Silurian', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['source rock geological age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=367, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000997', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sr_geol_age_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sr_kerog_type': SlotDefinition(name='sr_kerog_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='source rock kerogen type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Type IV', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['source rock kerogen type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=368, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000994', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sr_kerog_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sr_lithology': SlotDefinition(name='sr_lithology', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='source rock lithology', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Coal', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['source rock lithology'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=369, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000995', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sr_lithology_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate_fw': SlotDefinition(name='sulfate_fw', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original sulfate concentration in the hydrocarbon resource', alt_descriptions={}, title='sulfate in formation water', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate in formation water'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=370, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000407', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'suspend_solids': SlotDefinition(name='suspend_solids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='suspended solid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, milligram per liter, mole per liter, gram per liter, part per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances', alt_descriptions={}, title='suspended solids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['suspended solids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=372, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000150', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tan': SlotDefinition(name='tan', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)', alt_descriptions={}, title='total acid number', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total acid number'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=373, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000120', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'toluene': SlotDefinition(name='toluene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of toluene in the sample', alt_descriptions={}, title='toluene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['toluene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=375, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000154', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_iron': SlotDefinition(name='tot_iron', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, milligram per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of total iron in the sample', alt_descriptions={}, title='total iron', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total iron'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=376, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000105', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro': SlotDefinition(name='tot_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen', alt_descriptions={}, title='total nitrogen concentration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total nitrogen concentration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=377, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000102', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_phosp': SlotDefinition(name='tot_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus', alt_descriptions={}, title='total phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.03 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=52, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000117', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_sulfur': SlotDefinition(name='tot_sulfur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of total sulfur in the sample', alt_descriptions={}, title='total sulfur', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total sulfur'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=379, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000419', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tvdss_of_hcr_press': SlotDefinition(name='tvdss_of_hcr_press', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m).', alt_descriptions={}, title='depth (TVDSS) of hydrocarbon resource pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth (TVDSS) of hydrocarbon resource pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=380, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000397', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tvdss_of_hcr_temp': SlotDefinition(name='tvdss_of_hcr_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m).', alt_descriptions={}, title='depth (TVDSS) of hydrocarbon resource temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth (TVDSS) of hydrocarbon resource temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=381, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000394', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'vfa': SlotDefinition(name='vfa', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of Volatile Fatty Acids in the sample', alt_descriptions={}, title='volatile fatty acids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['volatile fatty acids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=382, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000152', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'vfa_fw': SlotDefinition(name='vfa_fw', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original volatile fatty acid concentration in the hydrocarbon resource', alt_descriptions={}, title='vfa in formation water', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['vfa in formation water'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=383, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000408', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'viscosity': SlotDefinition(name='viscosity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cP at degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)\", alt_descriptions={}, title='viscosity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['viscosity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=384, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000126', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'win': SlotDefinition(name='win', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)', alt_descriptions={}, title='well identification number', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['well identification number'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=388, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000297', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'xylene': SlotDefinition(name='xylene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of xylene in the sample', alt_descriptions={}, title='xylene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['xylene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=389, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000156', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:HcrCoresInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'HcrFluidsSwabsInterface': ClassDefinition(name='HcrFluidsSwabsInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HcrFluidsSwabsInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='hcr_fluids_swabs dh_interface', alt_descriptions={}, title='Hcr Fluids Swabs', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['add_recov_method', 'additional_info', 'alkalinity', 'alkalinity_method', 'ammonium', 'api', 'aromatics_pc', 'asphaltenes_pc', 'basin', 'benzene', 'biocide', 'biocide_admin_method', 'calcium', 'chem_administration', 'chem_treat_method', 'chem_treatment', 'chloride', 'collection_date', 'density', 'depos_env', 'depth', 'diss_carb_dioxide', 'diss_inorg_carb', 'diss_inorg_phosp', 'diss_iron', 'diss_org_carb', 'diss_oxygen_fluid', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'ethylbenzene', 'experimental_factor', 'field', 'geo_loc_name', 'hc_produced', 'hcr', 'hcr_fw_salinity', 'hcr_geol_age', 'hcr_pressure', 'hcr_temp', 'horizon_meth', 'iw_bt_date_well', 'iwf', 'lat_lon', 'lithology', 'magnesium', 'misc_param', 'nitrate', 'nitrite', 'org_count_qpcr_info', 'organism_count', 'oxy_stat_samp', 'ph', 'ph_meth', 'potassium', 'pour_point', 'pressure', 'prod_rate', 'prod_start_date', 'reservoir', 'resins_pc', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_collect_point', 'samp_loc_corr_rate', 'samp_mat_process', 'samp_preserv', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'samp_subtype', 'samp_transport_cond', 'samp_type', 'samp_well_name', 'HcrFluidsSwabsInterface_sample_link', 'saturates_pc', 'size_frac', 'sodium', 'specific_ecosystem', 'sulfate', 'sulfate_fw', 'sulfide', 'suspend_solids', 'tan', 'temp', 'toluene', 'tot_iron', 'tot_nitro', 'tot_phosp', 'tot_sulfur', 'tvdss_of_hcr_press', 'tvdss_of_hcr_temp', 'vfa', 'vfa_fw', 'viscosity', 'water_cut', 'water_prod_rate', 'win', 'xylene', 'HcrFluidsSwabsInterface_add_recov_method', 'HcrFluidsSwabsInterface_additional_info', 'HcrFluidsSwabsInterface_alkalinity', 'HcrFluidsSwabsInterface_alkalinity_method', 'HcrFluidsSwabsInterface_ammonium', 'HcrFluidsSwabsInterface_api', 'HcrFluidsSwabsInterface_aromatics_pc', 'HcrFluidsSwabsInterface_asphaltenes_pc', 'HcrFluidsSwabsInterface_basin', 'HcrFluidsSwabsInterface_benzene', 'HcrFluidsSwabsInterface_biocide', 'HcrFluidsSwabsInterface_biocide_admin_method', 'HcrFluidsSwabsInterface_calcium', 'HcrFluidsSwabsInterface_chem_administration', 'HcrFluidsSwabsInterface_chem_treat_method', 'HcrFluidsSwabsInterface_chem_treatment', 'HcrFluidsSwabsInterface_chloride', 'HcrFluidsSwabsInterface_collection_date', 'HcrFluidsSwabsInterface_density', 'HcrFluidsSwabsInterface_depos_env', 'HcrFluidsSwabsInterface_depth', 'HcrFluidsSwabsInterface_diss_carb_dioxide', 'HcrFluidsSwabsInterface_diss_inorg_carb', 'HcrFluidsSwabsInterface_diss_inorg_phosp', 'HcrFluidsSwabsInterface_diss_iron', 'HcrFluidsSwabsInterface_diss_org_carb', 'HcrFluidsSwabsInterface_diss_oxygen_fluid', 'HcrFluidsSwabsInterface_ecosystem', 'HcrFluidsSwabsInterface_ecosystem_category', 'HcrFluidsSwabsInterface_ecosystem_subtype', 'HcrFluidsSwabsInterface_ecosystem_type', 'HcrFluidsSwabsInterface_elev', 'HcrFluidsSwabsInterface_env_broad_scale', 'HcrFluidsSwabsInterface_env_local_scale', 'HcrFluidsSwabsInterface_env_medium', 'HcrFluidsSwabsInterface_env_package', 'HcrFluidsSwabsInterface_ethylbenzene', 'HcrFluidsSwabsInterface_experimental_factor', 'HcrFluidsSwabsInterface_field', 'HcrFluidsSwabsInterface_geo_loc_name', 'HcrFluidsSwabsInterface_hc_produced', 'HcrFluidsSwabsInterface_hcr', 'HcrFluidsSwabsInterface_hcr_fw_salinity', 'HcrFluidsSwabsInterface_hcr_geol_age', 'HcrFluidsSwabsInterface_hcr_pressure', 'HcrFluidsSwabsInterface_hcr_temp', 'HcrFluidsSwabsInterface_horizon_meth', 'HcrFluidsSwabsInterface_iw_bt_date_well', 'HcrFluidsSwabsInterface_iwf', 'HcrFluidsSwabsInterface_lat_lon', 'HcrFluidsSwabsInterface_lithology', 'HcrFluidsSwabsInterface_magnesium', 'HcrFluidsSwabsInterface_misc_param', 'HcrFluidsSwabsInterface_nitrate', 'HcrFluidsSwabsInterface_nitrite', 'HcrFluidsSwabsInterface_org_count_qpcr_info', 'HcrFluidsSwabsInterface_organism_count', 'HcrFluidsSwabsInterface_oxy_stat_samp', 'HcrFluidsSwabsInterface_ph', 'HcrFluidsSwabsInterface_ph_meth', 'HcrFluidsSwabsInterface_potassium', 'HcrFluidsSwabsInterface_pour_point', 'HcrFluidsSwabsInterface_pressure', 'HcrFluidsSwabsInterface_prod_rate', 'HcrFluidsSwabsInterface_prod_start_date', 'HcrFluidsSwabsInterface_reservoir', 'HcrFluidsSwabsInterface_resins_pc', 'HcrFluidsSwabsInterface_salinity', 'HcrFluidsSwabsInterface_samp_collec_device', 'HcrFluidsSwabsInterface_samp_collec_method', 'HcrFluidsSwabsInterface_samp_collect_point', 'HcrFluidsSwabsInterface_samp_loc_corr_rate', 'HcrFluidsSwabsInterface_samp_mat_process', 'HcrFluidsSwabsInterface_samp_preserv', 'HcrFluidsSwabsInterface_samp_size', 'HcrFluidsSwabsInterface_samp_store_dur', 'HcrFluidsSwabsInterface_samp_store_loc', 'HcrFluidsSwabsInterface_samp_store_temp', 'HcrFluidsSwabsInterface_samp_subtype', 'HcrFluidsSwabsInterface_samp_transport_cond', 'HcrFluidsSwabsInterface_samp_type', 'HcrFluidsSwabsInterface_samp_well_name', 'HcrFluidsSwabsInterface_saturates_pc', 'HcrFluidsSwabsInterface_size_frac', 'HcrFluidsSwabsInterface_sodium', 'HcrFluidsSwabsInterface_specific_ecosystem', 'HcrFluidsSwabsInterface_sulfate', 'HcrFluidsSwabsInterface_sulfate_fw', 'HcrFluidsSwabsInterface_sulfide', 'HcrFluidsSwabsInterface_suspend_solids', 'HcrFluidsSwabsInterface_tan', 'HcrFluidsSwabsInterface_temp', 'HcrFluidsSwabsInterface_toluene', 'HcrFluidsSwabsInterface_tot_iron', 'HcrFluidsSwabsInterface_tot_nitro', 'HcrFluidsSwabsInterface_tot_phosp', 'HcrFluidsSwabsInterface_tot_sulfur', 'HcrFluidsSwabsInterface_tvdss_of_hcr_press', 'HcrFluidsSwabsInterface_tvdss_of_hcr_temp', 'HcrFluidsSwabsInterface_vfa', 'HcrFluidsSwabsInterface_vfa_fw', 'HcrFluidsSwabsInterface_viscosity', 'HcrFluidsSwabsInterface_water_cut', 'HcrFluidsSwabsInterface_water_prod_rate', 'HcrFluidsSwabsInterface_win', 'HcrFluidsSwabsInterface_xylene', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'add_recov_method': SlotDefinition(name='add_recov_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='secondary and tertiary recovery methods and start date', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Polymer Addition;2018-06-21T14:30Z', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['secondary and tertiary recovery methods and start date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=289, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'additional_info': SlotDefinition(name='additional_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary\", alt_descriptions={}, title='additional info', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['additional info'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=290, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000300', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkalinity_method': SlotDefinition(name='alkalinity_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='description of method', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Method used for alkalinity measurement', alt_descriptions={}, title='alkalinity method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='titration', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=218, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000298', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'api': SlotDefinition(name='api', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degrees API', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)', alt_descriptions={}, title='API gravity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['API gravity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=291, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000157', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aromatics_pc': SlotDefinition(name='aromatics_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='aromatics wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aromatics wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=292, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000133', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'asphaltenes_pc': SlotDefinition(name='asphaltenes_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='asphaltenes wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['asphaltenes wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=293, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000135', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'basin': SlotDefinition(name='basin', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the basin (e.g. Campos)', alt_descriptions={}, title='basin name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['basin name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=294, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000290', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'benzene': SlotDefinition(name='benzene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of benzene in the sample', alt_descriptions={}, title='benzene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['benzene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=295, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000153', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biocide': SlotDefinition(name='biocide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;name;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of biocides (commercial name of product and supplier) and date of administration', alt_descriptions={}, title='biocide administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='ALPHA 1427;Baker Hughes;2008-01-23', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biocide administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=297, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{text};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0001011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biocide_admin_method': SlotDefinition(name='biocide_admin_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;frequency;duration;duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; weekly; 4 hr; 3 days)', alt_descriptions={}, title='biocide administration method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biocide administration method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=298, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration};{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000456', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_treat_method': SlotDefinition(name='chem_treat_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;frequency;duration;duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Method of chemical administration(dose, frequency, duration, time elapsed between administration and sampling) (e.g. 50 mg/l; twice a week; 1 hr; 0 days)', alt_descriptions={}, title='chemical treatment method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical treatment method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=302, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration};{duration};{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000457', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_treatment': SlotDefinition(name='chem_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;name;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='List of chemical compounds administered upstream the sampling location where sampling occurred (e.g. Glycols, H2S scavenger, corrosion and scale inhibitors, demulsifiers, and other production chemicals etc.). The commercial name of the product and name of the supplier should be provided. The date of administration should also be included', alt_descriptions={}, title='chemical treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='ACCENT 1125;DOW;2010-11-17', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=303, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{text};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0001012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'density': SlotDefinition(name='density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter, gram per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Density of the sample, which is its mass per unit volume (aka volumetric mass density)', alt_descriptions={}, title='density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1000 kilogram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000435', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depos_env': SlotDefinition(name='depos_env', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='depositional environment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Continental - Alluvial', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depositional environment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=304, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000992', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='depos_env_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_phosp': SlotDefinition(name='diss_inorg_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved inorganic phosphorus in the sample', alt_descriptions={}, title='dissolved inorganic phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='56.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=224, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_iron': SlotDefinition(name='diss_iron', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved iron in the sample', alt_descriptions={}, title='dissolved iron', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved iron'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=305, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000139', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_carb': SlotDefinition(name='diss_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid', alt_descriptions={}, title='dissolved organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='197 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000433', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen_fluid': SlotDefinition(name='diss_oxygen_fluid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic).', alt_descriptions={}, title='dissolved oxygen in fluids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen in fluids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=306, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000438', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ethylbenzene': SlotDefinition(name='ethylbenzene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ethylbenzene in the sample', alt_descriptions={}, title='ethylbenzene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ethylbenzene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=309, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000155', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'field': SlotDefinition(name='field', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the hydrocarbon field (e.g. Albacora)', alt_descriptions={}, title='field name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['field name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=310, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000291', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hc_produced': SlotDefinition(name='hc_produced', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon type produced', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Gas', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon type produced'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=313, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000989', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hc_produced_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr': SlotDefinition(name='hcr', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon resource type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Oil Sand', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=314, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000988', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hcr_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_fw_salinity': SlotDefinition(name='hcr_fw_salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS', alt_descriptions={}, title='formation water salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['formation water salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=315, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000406', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_geol_age': SlotDefinition(name='hcr_geol_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='hydrocarbon resource geological age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Silurian', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource geological age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=316, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000993', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='hcr_geol_age_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_pressure': SlotDefinition(name='hcr_pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere, kilopascal', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original pressure of the hydrocarbon resource', alt_descriptions={}, title='hydrocarbon resource original pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource original pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=317, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000395', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'hcr_temp': SlotDefinition(name='hcr_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original temperature of the hydrocarbon resource', alt_descriptions={}, title='hydrocarbon resource original temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='150-295 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['hydrocarbon resource original temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=318, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000393', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'iw_bt_date_well': SlotDefinition(name='iw_bt_date_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Injection water breakthrough date per well following a secondary and/or tertiary recovery', alt_descriptions={}, title='injection water breakthrough date of specific well', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2018-05-11', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['injection water breakthrough date of specific well'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=334, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'iwf': SlotDefinition(name='iwf', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%)', alt_descriptions={}, title='injection water fraction', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['injection water fraction'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=335, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000455', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lithology': SlotDefinition(name='lithology', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='lithology', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Volcanic', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['lithology'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=336, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000990', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='lithology_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'magnesium': SlotDefinition(name='magnesium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter, milligram per liter, parts per million, micromole per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of magnesium in the sample', alt_descriptions={}, title='magnesium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='52.8 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['magnesium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000431', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_count_qpcr_info': SlotDefinition(name='org_count_qpcr_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per gram (or ml or cm^2)', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)', alt_descriptions={}, title='organism count qPCR information', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count qPCR information'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=337, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles', singular_name=None, domain=None, slot_uri='MIXS:0000099', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pour_point': SlotDefinition(name='pour_point', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)', alt_descriptions={}, title='pour point', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pour point'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=341, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000127', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'prod_rate': SlotDefinition(name='prod_rate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic meter per day', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Oil and/or gas production rates per well (e.g. 524 m3 / day)', alt_descriptions={}, title='production rate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['production rate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=344, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000452', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'prod_start_date': SlotDefinition(name='prod_start_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"Date of field's first production\", alt_descriptions={}, title='production start date', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2018-05-11', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['production start date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=345, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'reservoir': SlotDefinition(name='reservoir', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the reservoir (e.g. Carapebus)', alt_descriptions={}, title='reservoir name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['reservoir name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=347, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000303', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'resins_pc': SlotDefinition(name='resins_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='resins wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['resins wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=348, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000134', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collect_point': SlotDefinition(name='samp_collect_point', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='sample collection point', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='well', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection point'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=349, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001015', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_collect_point_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_loc_corr_rate': SlotDefinition(name='samp_loc_corr_rate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millimeter per year', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays', alt_descriptions={}, title='corrosion rate at sample location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['corrosion rate at sample location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=350, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000136', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_preserv': SlotDefinition(name='samp_preserv', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliliter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml)', alt_descriptions={}, title='preservative added to sample', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['preservative added to sample'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=352, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000463', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_subtype': SlotDefinition(name='samp_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field', alt_descriptions={}, title='sample subtype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='biofilm', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample subtype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=354, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000999', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_subtype_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_transport_cond': SlotDefinition(name='samp_transport_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='days;degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)', alt_descriptions={}, title='sample transport conditions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 days;-20 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample transport conditions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=355, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000410', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_type': SlotDefinition(name='samp_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='GENEPIO:0001246', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).', alt_descriptions={}, title='sample type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='built environment sample [GENEPIO:0001248]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=357, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000998', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_well_name': SlotDefinition(name='samp_well_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of the well (e.g. BXA1123) where sample was taken', alt_descriptions={}, title='sample well name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample well name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=358, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000296', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'saturates_pc': SlotDefinition(name='saturates_pc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)', alt_descriptions={}, title='saturates wt%', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['saturates wt%'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=359, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000131', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate_fw': SlotDefinition(name='sulfate_fw', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original sulfate concentration in the hydrocarbon resource', alt_descriptions={}, title='sulfate in formation water', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate in formation water'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=370, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000407', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'suspend_solids': SlotDefinition(name='suspend_solids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='suspended solid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, milligram per liter, mole per liter, gram per liter, part per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances', alt_descriptions={}, title='suspended solids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['suspended solids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=372, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000150', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tan': SlotDefinition(name='tan', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)', alt_descriptions={}, title='total acid number', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total acid number'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=373, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000120', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'toluene': SlotDefinition(name='toluene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of toluene in the sample', alt_descriptions={}, title='toluene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['toluene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=375, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000154', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_iron': SlotDefinition(name='tot_iron', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, milligram per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of total iron in the sample', alt_descriptions={}, title='total iron', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total iron'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=376, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000105', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro': SlotDefinition(name='tot_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen', alt_descriptions={}, title='total nitrogen concentration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total nitrogen concentration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=377, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000102', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_phosp': SlotDefinition(name='tot_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus', alt_descriptions={}, title='total phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.03 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=52, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000117', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_sulfur': SlotDefinition(name='tot_sulfur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of total sulfur in the sample', alt_descriptions={}, title='total sulfur', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total sulfur'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=379, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000419', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tvdss_of_hcr_press': SlotDefinition(name='tvdss_of_hcr_press', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m).', alt_descriptions={}, title='depth (TVDSS) of hydrocarbon resource pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth (TVDSS) of hydrocarbon resource pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=380, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000397', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tvdss_of_hcr_temp': SlotDefinition(name='tvdss_of_hcr_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m).', alt_descriptions={}, title='depth (TVDSS) of hydrocarbon resource temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth (TVDSS) of hydrocarbon resource temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=381, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000394', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'vfa': SlotDefinition(name='vfa', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of Volatile Fatty Acids in the sample', alt_descriptions={}, title='volatile fatty acids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['volatile fatty acids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=382, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000152', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'vfa_fw': SlotDefinition(name='vfa_fw', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original volatile fatty acid concentration in the hydrocarbon resource', alt_descriptions={}, title='vfa in formation water', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['vfa in formation water'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=383, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000408', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'viscosity': SlotDefinition(name='viscosity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cP at degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description=\"A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)\", alt_descriptions={}, title='viscosity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['viscosity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=384, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000126', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_cut': SlotDefinition(name='water_cut', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percent', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Current amount of water (%) in a produced fluid stream; or the average of the combined streams', alt_descriptions={}, title='water cut', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water cut'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=386, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000454', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_prod_rate': SlotDefinition(name='water_prod_rate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic meter per day', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Water production rates per well (e.g. 987 m3 / day)', alt_descriptions={}, title='water production rate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water production rate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=387, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000453', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'win': SlotDefinition(name='win', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)', alt_descriptions={}, title='well identification number', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['well identification number'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=388, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000297', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'xylene': SlotDefinition(name='xylene', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of xylene in the sample', alt_descriptions={}, title='xylene', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['xylene'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=389, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000156', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:HcrFluidsSwabsInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'HostAssociatedInterface': ClassDefinition(name='HostAssociatedInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HostAssociatedInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='host_associated dh_interface', alt_descriptions={}, title='Host Associated', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alt', 'ances_data', 'biol_stat', 'blood_press_diast', 'blood_press_syst', 'chem_administration', 'collection_date', 'depth', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'genetic_mod', 'geo_loc_name', 'gravidity', 'horizon_meth', 'host_age', 'host_body_habitat', 'host_body_product', 'host_body_site', 'host_body_temp', 'host_color', 'host_common_name', 'host_diet', 'host_dry_mass', 'host_family_relation', 'host_genotype', 'host_growth_cond', 'host_height', 'host_last_meal', 'host_length', 'host_life_stage', 'host_phenotype', 'host_sex', 'host_shape', 'host_subject_id', 'host_subspecf_genlin', 'host_substrate', 'host_symbiont', 'host_taxid', 'host_tot_mass', 'lat_lon', 'misc_param', 'organism_count', 'oxy_stat_samp', 'perturbation', 'salinity', 'samp_capt_status', 'samp_collec_device', 'samp_collec_method', 'samp_dis_stage', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'HostAssociatedInterface_sample_link', 'size_frac', 'specific_ecosystem', 'temp', 'HostAssociatedInterface_alt', 'HostAssociatedInterface_ances_data', 'HostAssociatedInterface_biol_stat', 'HostAssociatedInterface_blood_press_diast', 'HostAssociatedInterface_blood_press_syst', 'HostAssociatedInterface_chem_administration', 'HostAssociatedInterface_collection_date', 'HostAssociatedInterface_depth', 'HostAssociatedInterface_ecosystem', 'HostAssociatedInterface_ecosystem_category', 'HostAssociatedInterface_ecosystem_subtype', 'HostAssociatedInterface_ecosystem_type', 'HostAssociatedInterface_elev', 'HostAssociatedInterface_env_broad_scale', 'HostAssociatedInterface_env_local_scale', 'HostAssociatedInterface_env_medium', 'HostAssociatedInterface_env_package', 'HostAssociatedInterface_experimental_factor', 'HostAssociatedInterface_genetic_mod', 'HostAssociatedInterface_geo_loc_name', 'HostAssociatedInterface_gravidity', 'HostAssociatedInterface_horizon_meth', 'HostAssociatedInterface_host_age', 'HostAssociatedInterface_host_body_habitat', 'HostAssociatedInterface_host_body_product', 'HostAssociatedInterface_host_body_site', 'HostAssociatedInterface_host_body_temp', 'HostAssociatedInterface_host_color', 'HostAssociatedInterface_host_common_name', 'HostAssociatedInterface_host_diet', 'HostAssociatedInterface_host_dry_mass', 'HostAssociatedInterface_host_family_relation', 'HostAssociatedInterface_host_genotype', 'HostAssociatedInterface_host_growth_cond', 'HostAssociatedInterface_host_height', 'HostAssociatedInterface_host_last_meal', 'HostAssociatedInterface_host_length', 'HostAssociatedInterface_host_life_stage', 'HostAssociatedInterface_host_phenotype', 'HostAssociatedInterface_host_sex', 'HostAssociatedInterface_host_shape', 'HostAssociatedInterface_host_subject_id', 'HostAssociatedInterface_host_subspecf_genlin', 'HostAssociatedInterface_host_substrate', 'HostAssociatedInterface_host_symbiont', 'HostAssociatedInterface_host_taxid', 'HostAssociatedInterface_host_tot_mass', 'HostAssociatedInterface_lat_lon', 'HostAssociatedInterface_misc_param', 'HostAssociatedInterface_organism_count', 'HostAssociatedInterface_oxy_stat_samp', 'HostAssociatedInterface_perturbation', 'HostAssociatedInterface_salinity', 'HostAssociatedInterface_samp_capt_status', 'HostAssociatedInterface_samp_collec_device', 'HostAssociatedInterface_samp_collec_method', 'HostAssociatedInterface_samp_dis_stage', 'HostAssociatedInterface_samp_mat_process', 'HostAssociatedInterface_samp_size', 'HostAssociatedInterface_samp_store_dur', 'HostAssociatedInterface_samp_store_loc', 'HostAssociatedInterface_samp_store_temp', 'HostAssociatedInterface_size_frac', 'HostAssociatedInterface_specific_ecosystem', 'HostAssociatedInterface_temp', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alt': SlotDefinition(name='alt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description=\"Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air\", alt_descriptions={}, title='altitude', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['altitude'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000094', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ances_data': SlotDefinition(name='ances_data', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)', alt_descriptions={}, title='ancestral data', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='A/3*B', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ancestral data'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=237, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000247', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biol_stat': SlotDefinition(name='biol_stat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The level of genome modification.', alt_descriptions={}, title='biological status', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='natural', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biological status'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=239, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000858', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='biol_stat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'blood_press_diast': SlotDefinition(name='blood_press_diast', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millimeter mercury', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Resting diastolic blood pressure, measured as mm mercury', alt_descriptions={}, title='host blood pressure diastolic', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host blood pressure diastolic'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=299, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000258', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'blood_press_syst': SlotDefinition(name='blood_press_syst', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millimeter mercury', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Resting systolic blood pressure, measured as mm mercury', alt_descriptions={}, title='host blood pressure systolic', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host blood pressure systolic'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=300, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000259', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'genetic_mod': SlotDefinition(name='genetic_mod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url or free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection', alt_descriptions={}, title='genetic modification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='aox1A transgenic', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['genetic modification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=244, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000859', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gravidity': SlotDefinition(name='gravidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='gravidity status;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used', alt_descriptions={}, title='gravidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='yes;due date:2018-05-11', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['gravidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=312, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{boolean};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000875', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_age': SlotDefinition(name='host_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='year, day, hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees', alt_descriptions={}, title='host age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10 days', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=249, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000255', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_body_habitat': SlotDefinition(name='host_body_habitat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Original body habitat where the sample was obtained from', alt_descriptions={}, title='host body habitat', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='nasopharynx', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host body habitat'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=319, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000866', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_body_product': SlotDefinition(name='host_body_product', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='FMA or UBERON', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon', alt_descriptions={}, title='host body product', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Portion of mucus [fma66938]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host body product'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=320, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000888', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_body_site': SlotDefinition(name='host_body_site', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='FMA or UBERON', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON', alt_descriptions={}, title='host body site', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='gill [UBERON:0002535]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host body site'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=321, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000867', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_body_temp': SlotDefinition(name='host_body_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Core body temperature of the host when sample was collected', alt_descriptions={}, title='host body temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host body temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=322, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000274', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_color': SlotDefinition(name='host_color', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='color', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The color of host', alt_descriptions={}, title='host color', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host color'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=323, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000260', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_common_name': SlotDefinition(name='host_common_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='common name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Common name of the host.', alt_descriptions={}, title='host common name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='human', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host common name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=250, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000248', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_diet': SlotDefinition(name='host_diet', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='diet type', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types', alt_descriptions={}, title='host diet', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='herbivore', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host diet'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=324, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000869', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_dry_mass': SlotDefinition(name='host_dry_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of dry mass', alt_descriptions={}, title='host dry mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='500 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host dry mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=251, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000257', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_family_relation': SlotDefinition(name='host_family_relation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='relationship type;arbitrary identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Familial relationships to other hosts in the same study; can include multiple relationships', alt_descriptions={}, title='host family relationship', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='offspring;Mussel25', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host family relationship'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=325, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{text}', singular_name=None, domain=None, slot_uri='MIXS:0000872', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_genotype': SlotDefinition(name='host_genotype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='genotype', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Observed genotype', alt_descriptions={}, title='host genotype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='C57BL/6', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host genotype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=252, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000365', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_growth_cond': SlotDefinition(name='host_growth_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url or free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Literature reference giving growth conditions of the host', alt_descriptions={}, title='host growth conditions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='https://academic.oup.com/icesjms/article/68/2/349/617247', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host growth conditions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=326, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000871', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_height': SlotDefinition(name='host_height', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter, millimeter, meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The height of subject', alt_descriptions={}, title='host height', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.1 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host height'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=253, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000264', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_last_meal': SlotDefinition(name='host_last_meal', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='content;duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Content of last meal and time since feeding; can include multiple values', alt_descriptions={}, title='host last meal', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='corn feed;P2H', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host last meal'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=327, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000870', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_length': SlotDefinition(name='host_length', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter, millimeter, meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The length of subject', alt_descriptions={}, title='host length', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host length'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=254, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000256', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_life_stage': SlotDefinition(name='host_life_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='stage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Description of life stage of host', alt_descriptions={}, title='host life stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='adult', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host life stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=255, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000251', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_phenotype': SlotDefinition(name='host_phenotype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PATO or HP', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP', alt_descriptions={}, title='host phenotype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='elongated [PATO:0001154]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host phenotype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=256, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000874', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_sex': SlotDefinition(name='host_sex', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Gender or physical sex of the host.', alt_descriptions={}, title='host sex', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='non-binary', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host sex'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=328, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000811', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='host_sex_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_shape': SlotDefinition(name='host_shape', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='shape', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Morphological shape of host', alt_descriptions={}, title='host shape', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='round', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host shape'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=329, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000261', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_subject_id': SlotDefinition(name='host_subject_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='unique identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A unique identifier by which each subject can be referred to, de-identified.', alt_descriptions={}, title='host subject id', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='MPI123', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host subject id'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=330, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000861', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_subspecf_genlin': SlotDefinition(name='host_subspecf_genlin', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar.', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.', alt_descriptions={}, title='host subspecific genetic lineage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='serovar:Newport, variety:glabrum, cultivar: Red Delicious', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host subspecific genetic lineage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=257, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{rank name}:{text}', singular_name=None, domain=None, slot_uri='MIXS:0001318', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_substrate': SlotDefinition(name='host_substrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='substrate name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The growth substrate of the host.', alt_descriptions={}, title='host substrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='rock', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host substrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=331, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000252', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_symbiont': SlotDefinition(name='host_symbiont', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='species name or common name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.', alt_descriptions={}, title='observed host symbionts', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='flukeworms', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['observed host symbionts'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=258, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001298', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_taxid': SlotDefinition(name='host_taxid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='NCBI taxon identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='NCBI taxon id of the host, e.g. 9606', alt_descriptions={}, title='host taxid', deprecated=None, todos=[], notes=[], comments=['Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host taxid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=259, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000250', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_tot_mass': SlotDefinition(name='host_tot_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total mass of the host at collection, the unit depends on host', alt_descriptions={}, title='host total mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2500 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host total mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=260, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000263', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_capt_status': SlotDefinition(name='samp_capt_status', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reason for the sample', alt_descriptions={}, title='sample capture status', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='farm sample', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample capture status'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=282, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000860', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_capt_status_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_dis_stage': SlotDefinition(name='samp_dis_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.', alt_descriptions={}, title='sample disease stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='infection', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample disease stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=283, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000249', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_dis_stage_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:HostAssociatedInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'JgiMgInterface': ClassDefinition(name='JgiMgInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/JgiMgInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='jgi_mg dh_interface', alt_descriptions={}, title='JGI MG', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['JgiMgInterface_dna_absorb1', 'JgiMgInterface_dna_absorb2', 'JgiMgInterface_dna_concentration', 'JgiMgInterface_dna_cont_type', 'JgiMgInterface_dna_cont_well', 'JgiMgInterface_dna_container_id', 'JgiMgInterface_dna_dnase', 'JgiMgInterface_dna_isolate_meth', 'JgiMgInterface_dna_project_contact', 'JgiMgInterface_dna_samp_id', 'JgiMgInterface_dna_sample_format', 'JgiMgInterface_dna_sample_name', 'JgiMgInterface_dna_seq_project', 'JgiMgInterface_dna_seq_project_name', 'JgiMgInterface_dna_seq_project_pi', 'JgiMgInterface_dna_volume', 'JgiMgInterface_proposal_dna', 'dna_absorb1', 'dna_absorb2', 'dna_concentration', 'dna_cont_type', 'dna_cont_well', 'dna_container_id', 'dna_dnase', 'dna_isolate_meth', 'dna_project_contact', 'dna_samp_id', 'dna_sample_format', 'dna_sample_name', 'dna_seq_project', 'dna_seq_project_name', 'dna_seq_project_pi', 'dna_volume', 'proposal_dna', 'JgiMgInterface_oxy_stat_samp', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'dna_absorb1': SlotDefinition(name='dna_absorb1', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='260/280 measurement of DNA sample purity', alt_descriptions={}, title='DNA absorbance 260/280', deprecated=None, todos=[], notes=[], comments=['Recommended value is between 1 and 3.'], examples=[Example(value='2.02', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_absorb2': SlotDefinition(name='dna_absorb2', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='260/230 measurement of DNA sample purity', alt_descriptions={}, title='DNA absorbance 260/230', deprecated=None, todos=[], notes=[], comments=['Recommended value is between 1 and 3.'], examples=[Example(value='2.02', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_concentration': SlotDefinition(name='dna_concentration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA concentration in ng/ul', deprecated=None, todos=[], notes=[], comments=['Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000.'], examples=[Example(value='100', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=2000, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_cont_type': SlotDefinition(name='dna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Tube or plate (96-well)', alt_descriptions={}, title='DNA container type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='plate', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='JgiContTypeEnum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_cont_well': SlotDefinition(name='dna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA plate position', deprecated=None, todos=[], notes=[], comments=[\"Required when 'plate' is selected for container type.\", 'Leave blank if the sample will be shipped in a tube.', 'JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.', 'For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8).'], examples=[Example(value='B2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{96 well plate pos}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_container_id': SlotDefinition(name='dna_container_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA container label', deprecated=None, todos=[], notes=[], comments=['Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label.'], examples=[Example(value='Pond_MT_041618', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text < 20 characters}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^.{1,20}$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_dnase': SlotDefinition(name='dna_dnase', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNase treatment DNA', deprecated=None, todos=[], notes=[], comments=['Note DNase treatment is required for all RNA samples.'], examples=[Example(value='no', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='YesNoEnum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_isolate_meth': SlotDefinition(name='dna_isolate_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Describe the method/protocol/kit used to extract DNA/RNA.', alt_descriptions={}, title='DNA isolation method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='phenol/chloroform extraction', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_project_contact': SlotDefinition(name='dna_project_contact', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA seq project contact', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='John Jones', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_samp_id': SlotDefinition(name='dna_samp_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA sample ID', deprecated=None, todos=[\"Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled?\"], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='187654', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_sample_format': SlotDefinition(name='dna_sample_format', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Solution in which the DNA sample has been suspended', alt_descriptions={}, title='DNA sample format', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Water', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='dna_sample_format_enum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_sample_name': SlotDefinition(name='dna_sample_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.', alt_descriptions={}, title='DNA sample name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='JGI_pond_041618', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_seq_project': SlotDefinition(name='dna_seq_project', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA seq project ID', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='1191234', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_seq_project_name': SlotDefinition(name='dna_seq_project_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA seq project name', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='JGI Pond metagenomics', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_seq_project_pi': SlotDefinition(name='dna_seq_project_pi', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA seq project PI', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='Jane Johnson', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'dna_volume': SlotDefinition(name='dna_volume', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA volume in ul', deprecated=None, todos=[], notes=[], comments=['Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only.'], examples=[Example(value='25', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=25, maximum_value=1000, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'proposal_dna': SlotDefinition(name='proposal_dna', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNA proposal ID', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='504000', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metagenomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:JgiMgInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[ClassRule(preconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'dna_cont_well': SlotDefinition(name='dna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='.+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), postconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'dna_cont_type': SlotDefinition(name='dna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string='plate', equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), elseconditions=None, bidirectional=None, open_world=None, rank=None, deactivated=None, extensions={}, annotations={}, description=\"DNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position.\", alt_descriptions={}, title='dna_well_requires_plate', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None), ClassRule(preconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'dna_cont_type': SlotDefinition(name='dna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string='plate', equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), postconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'dna_cont_well': SlotDefinition(name='dna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), elseconditions=None, bidirectional=None, open_world=None, rank=None, deactivated=None, extensions={}, annotations={}, description='DNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime', alt_descriptions={}, title='dna_plate_requires_well', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None)], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'JgiMtInterface': ClassDefinition(name='JgiMtInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/JgiMtInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='jgi_mt dh_interface', alt_descriptions={}, title='JGI MT', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['JgiMtInterface_dnase_rna', 'JgiMtInterface_proposal_rna', 'JgiMtInterface_rna_absorb1', 'JgiMtInterface_rna_absorb2', 'JgiMtInterface_rna_concentration', 'JgiMtInterface_rna_cont_type', 'JgiMtInterface_rna_cont_well', 'JgiMtInterface_rna_container_id', 'JgiMtInterface_rna_isolate_meth', 'JgiMtInterface_rna_project_contact', 'JgiMtInterface_rna_samp_id', 'JgiMtInterface_rna_sample_format', 'JgiMtInterface_rna_sample_name', 'JgiMtInterface_rna_seq_project', 'JgiMtInterface_rna_seq_project_name', 'JgiMtInterface_rna_seq_project_pi', 'JgiMtInterface_rna_volume', 'dnase_rna', 'proposal_rna', 'rna_absorb1', 'rna_absorb2', 'rna_concentration', 'rna_cont_type', 'rna_cont_well', 'rna_container_id', 'rna_isolate_meth', 'rna_project_contact', 'rna_samp_id', 'rna_sample_format', 'rna_sample_name', 'rna_seq_project', 'rna_seq_project_name', 'rna_seq_project_pi', 'rna_volume', 'JgiMtInterface_oxy_stat_samp', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'dnase_rna': SlotDefinition(name='dnase_rna', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='DNase treated', deprecated=None, todos=[], notes=[], comments=['Note DNase treatment is required for all RNA samples.'], examples=[Example(value='no', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='YesNoEnum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'proposal_rna': SlotDefinition(name='proposal_rna', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA proposal ID', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='504000', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_absorb1': SlotDefinition(name='rna_absorb1', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='260/280 measurement of RNA sample purity', alt_descriptions={}, title='RNA absorbance 260/280', deprecated=None, todos=[], notes=[], comments=['Recommended value is between 1 and 3.'], examples=[Example(value='2.02', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_absorb2': SlotDefinition(name='rna_absorb2', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='260/230 measurement of RNA sample purity', alt_descriptions={}, title='RNA absorbance 260/230', deprecated=None, todos=[], notes=[], comments=['Recommended value is between 1 and 3.'], examples=[Example(value='2.02', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_concentration': SlotDefinition(name='rna_concentration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA concentration in ng/ul', deprecated=None, todos=[], notes=[], comments=['Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000.'], examples=[Example(value='100', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=1000, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_cont_type': SlotDefinition(name='rna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Tube or plate (96-well)', alt_descriptions={}, title='RNA container type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='plate', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='JgiContTypeEnum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_cont_well': SlotDefinition(name='rna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA plate position', deprecated=None, todos=[], notes=[], comments=[\"Required when 'plate' is selected for container type.\", 'Leave blank if the sample will be shipped in a tube.', 'JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation.', 'For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8).'], examples=[Example(value='B2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{96 well plate pos}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_container_id': SlotDefinition(name='rna_container_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA container label', deprecated=None, todos=[], notes=[], comments=['Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label.'], examples=[Example(value='Pond_MT_041618', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text < 20 characters}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^.{1,20}$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_isolate_meth': SlotDefinition(name='rna_isolate_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Describe the method/protocol/kit used to extract DNA/RNA.', alt_descriptions={}, title='RNA isolation method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='phenol/chloroform extraction', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_project_contact': SlotDefinition(name='rna_project_contact', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA seq project contact', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='John Jones', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_samp_id': SlotDefinition(name='rna_samp_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA sample ID', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='187654', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_sample_format': SlotDefinition(name='rna_sample_format', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Solution in which the RNA sample has been suspended', alt_descriptions={}, title='RNA sample format', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Water', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='rna_sample_format_enum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_sample_name': SlotDefinition(name='rna_sample_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only.', alt_descriptions={}, title='RNA sample name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='JGI_pond_041618', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=2000, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_seq_project': SlotDefinition(name='rna_seq_project', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA seq project ID', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='1191234', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_seq_project_name': SlotDefinition(name='rna_seq_project_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA seq project name', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='JGI Pond metatranscriptomics', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_seq_project_pi': SlotDefinition(name='rna_seq_project_pi', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA seq project PI', deprecated=None, todos=[], notes=[], comments=['Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled.'], examples=[Example(value='Jane Johnson', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rna_volume': SlotDefinition(name='rna_volume', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title='RNA volume in ul', deprecated=None, todos=[], notes=[], comments=['Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only.'], examples=[Example(value='25', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='jgi_metatranscriptomics_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=25, maximum_value=1000, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:JgiMtInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[ClassRule(preconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'rna_cont_well': SlotDefinition(name='rna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='.+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), postconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'rna_cont_type': SlotDefinition(name='rna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string='plate', equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), elseconditions=None, bidirectional=None, open_world=None, rank=None, deactivated=None, extensions={}, annotations={}, description=\"RNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position.\", alt_descriptions={}, title='rna_well_requires_plate', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None), ClassRule(preconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'rna_cont_type': SlotDefinition(name='rna_cont_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string='plate', equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), postconditions=AnonymousClassExpression(extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={'rna_cont_well': SlotDefinition(name='rna_cont_well', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range=None, range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}), elseconditions=None, bidirectional=None, open_world=None, rank=None, deactivated=None, extensions={}, annotations={}, description='RNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime', alt_descriptions={}, title='rna_plate_requires_well', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None)], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'MiscEnvsInterface': ClassDefinition(name='MiscEnvsInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/MiscEnvsInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='misc_envs dh_interface', alt_descriptions={}, title='Misc Envs', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alkalinity', 'alt', 'ammonium', 'biomass', 'bromide', 'calcium', 'chem_administration', 'chloride', 'chlorophyll', 'collection_date', 'density', 'depth', 'diether_lipids', 'diss_carb_dioxide', 'diss_hydrogen', 'diss_inorg_carb', 'diss_org_nitro', 'diss_oxygen', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'geo_loc_name', 'horizon_meth', 'lat_lon', 'misc_param', 'nitrate', 'nitrite', 'nitro', 'org_carb', 'org_matter', 'org_nitro', 'organism_count', 'oxy_stat_samp', 'perturbation', 'ph', 'ph_meth', 'phosphate', 'phosplipid_fatt_acid', 'potassium', 'pressure', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'MiscEnvsInterface_sample_link', 'silicate', 'size_frac', 'sodium', 'specific_ecosystem', 'sulfate', 'sulfide', 'temp', 'water_current', 'MiscEnvsInterface_alkalinity', 'MiscEnvsInterface_alt', 'MiscEnvsInterface_ammonium', 'MiscEnvsInterface_biomass', 'MiscEnvsInterface_bromide', 'MiscEnvsInterface_calcium', 'MiscEnvsInterface_chem_administration', 'MiscEnvsInterface_chloride', 'MiscEnvsInterface_chlorophyll', 'MiscEnvsInterface_collection_date', 'MiscEnvsInterface_density', 'MiscEnvsInterface_depth', 'MiscEnvsInterface_diether_lipids', 'MiscEnvsInterface_diss_carb_dioxide', 'MiscEnvsInterface_diss_hydrogen', 'MiscEnvsInterface_diss_inorg_carb', 'MiscEnvsInterface_diss_org_nitro', 'MiscEnvsInterface_diss_oxygen', 'MiscEnvsInterface_ecosystem', 'MiscEnvsInterface_ecosystem_category', 'MiscEnvsInterface_ecosystem_subtype', 'MiscEnvsInterface_ecosystem_type', 'MiscEnvsInterface_elev', 'MiscEnvsInterface_env_broad_scale', 'MiscEnvsInterface_env_local_scale', 'MiscEnvsInterface_env_medium', 'MiscEnvsInterface_env_package', 'MiscEnvsInterface_experimental_factor', 'MiscEnvsInterface_geo_loc_name', 'MiscEnvsInterface_horizon_meth', 'MiscEnvsInterface_lat_lon', 'MiscEnvsInterface_misc_param', 'MiscEnvsInterface_nitrate', 'MiscEnvsInterface_nitrite', 'MiscEnvsInterface_nitro', 'MiscEnvsInterface_org_carb', 'MiscEnvsInterface_org_matter', 'MiscEnvsInterface_org_nitro', 'MiscEnvsInterface_organism_count', 'MiscEnvsInterface_oxy_stat_samp', 'MiscEnvsInterface_perturbation', 'MiscEnvsInterface_ph', 'MiscEnvsInterface_ph_meth', 'MiscEnvsInterface_phosphate', 'MiscEnvsInterface_phosplipid_fatt_acid', 'MiscEnvsInterface_potassium', 'MiscEnvsInterface_pressure', 'MiscEnvsInterface_salinity', 'MiscEnvsInterface_samp_collec_device', 'MiscEnvsInterface_samp_collec_method', 'MiscEnvsInterface_samp_mat_process', 'MiscEnvsInterface_samp_size', 'MiscEnvsInterface_samp_store_dur', 'MiscEnvsInterface_samp_store_loc', 'MiscEnvsInterface_samp_store_temp', 'MiscEnvsInterface_silicate', 'MiscEnvsInterface_size_frac', 'MiscEnvsInterface_sodium', 'MiscEnvsInterface_specific_ecosystem', 'MiscEnvsInterface_sulfate', 'MiscEnvsInterface_sulfide', 'MiscEnvsInterface_temp', 'MiscEnvsInterface_water_current', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alt': SlotDefinition(name='alt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description=\"Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air\", alt_descriptions={}, title='altitude', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['altitude'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000094', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biomass': SlotDefinition(name='biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='biomass type;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ton, kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements', alt_descriptions={}, title='biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total;20 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biomass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000174', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bromide': SlotDefinition(name='bromide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bromide', alt_descriptions={}, title='bromide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bromide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000176', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chlorophyll': SlotDefinition(name='chlorophyll', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter, microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chlorophyll', alt_descriptions={}, title='chlorophyll', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chlorophyll'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000177', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'density': SlotDefinition(name='density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter, gram per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Density of the sample, which is its mass per unit volume (aka volumetric mass density)', alt_descriptions={}, title='density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1000 kilogram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000435', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diether_lipids': SlotDefinition(name='diether_lipids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='diether lipid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of diether lipids; can include multiple types of diether lipids', alt_descriptions={}, title='diether lipids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 nanogram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['diether lipids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000178', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_hydrogen': SlotDefinition(name='diss_hydrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved hydrogen', alt_descriptions={}, title='dissolved hydrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved hydrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000179', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_nitro': SlotDefinition(name='diss_org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2', alt_descriptions={}, title='dissolved organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000162', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen': SlotDefinition(name='diss_oxygen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen', alt_descriptions={}, title='dissolved oxygen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='175 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000119', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitro': SlotDefinition(name='nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrogen (total)', alt_descriptions={}, title='nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=28, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000504', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_carb': SlotDefinition(name='org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic carbon', alt_descriptions={}, title='organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=29, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000508', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_matter': SlotDefinition(name='org_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic matter', alt_descriptions={}, title='organic matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.75 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000204', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro': SlotDefinition(name='org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic nitrogen', alt_descriptions={}, title='organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000205', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosplipid_fatt_acid': SlotDefinition(name='phosplipid_fatt_acid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phospholipid fatty acid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per gram, mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phospholipid fatty acids; can include multiple values', alt_descriptions={}, title='phospholipid fatty acid', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.98 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phospholipid fatty acid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=36, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000181', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'silicate': SlotDefinition(name='silicate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of silicate', alt_descriptions={}, title='silicate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['silicate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=43, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000184', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_current': SlotDefinition(name='water_current', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic meter per second, knots', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of magnitude and direction of flow within a fluid', alt_descriptions={}, title='water current', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10 cubic meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water current'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=236, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000203', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:MiscEnvsInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'PlantAssociatedInterface': ClassDefinition(name='PlantAssociatedInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/PlantAssociatedInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='plant_associated dh_interface', alt_descriptions={}, title='Plant Associated', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['air_temp_regm', 'ances_data', 'antibiotic_regm', 'biol_stat', 'biotic_regm', 'chem_administration', 'chem_mutagen', 'climate_environment', 'collection_date', 'cult_root_med', 'depth', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'fertilizer_regm', 'fungicide_regm', 'gaseous_environment', 'genetic_mod', 'geo_loc_name', 'gravity', 'growth_facil', 'growth_habit', 'growth_hormone_regm', 'herbicide_regm', 'horizon_meth', 'host_age', 'host_common_name', 'host_dry_mass', 'host_genotype', 'host_height', 'host_length', 'host_life_stage', 'host_phenotype', 'host_subspecf_genlin', 'host_symbiont', 'host_taxid', 'host_tot_mass', 'host_wet_mass', 'humidity_regm', 'lat_lon', 'light_regm', 'mechanical_damage', 'mineral_nutr_regm', 'misc_param', 'non_min_nutr_regm', 'organism_count', 'oxy_stat_samp', 'perturbation', 'pesticide_regm', 'ph_regm', 'plant_growth_med', 'plant_product', 'plant_sex', 'plant_struc', 'radiation_regm', 'rainfall_regm', 'root_cond', 'root_med_carbon', 'root_med_macronutr', 'root_med_micronutr', 'root_med_ph', 'root_med_regl', 'root_med_solid', 'root_med_suppl', 'salinity', 'salt_regm', 'samp_capt_status', 'samp_collec_device', 'samp_collec_method', 'samp_dis_stage', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'PlantAssociatedInterface_sample_link', 'season_environment', 'size_frac', 'specific_ecosystem', 'standing_water_regm', 'temp', 'tiss_cult_growth_med', 'water_temp_regm', 'watering_regm', 'PlantAssociatedInterface_air_temp_regm', 'PlantAssociatedInterface_ances_data', 'PlantAssociatedInterface_antibiotic_regm', 'PlantAssociatedInterface_biol_stat', 'PlantAssociatedInterface_biotic_regm', 'PlantAssociatedInterface_chem_administration', 'PlantAssociatedInterface_chem_mutagen', 'PlantAssociatedInterface_climate_environment', 'PlantAssociatedInterface_collection_date', 'PlantAssociatedInterface_cult_root_med', 'PlantAssociatedInterface_depth', 'PlantAssociatedInterface_ecosystem', 'PlantAssociatedInterface_ecosystem_category', 'PlantAssociatedInterface_ecosystem_subtype', 'PlantAssociatedInterface_ecosystem_type', 'PlantAssociatedInterface_elev', 'PlantAssociatedInterface_env_broad_scale', 'PlantAssociatedInterface_env_local_scale', 'PlantAssociatedInterface_env_medium', 'PlantAssociatedInterface_env_package', 'PlantAssociatedInterface_experimental_factor', 'PlantAssociatedInterface_fertilizer_regm', 'PlantAssociatedInterface_fungicide_regm', 'PlantAssociatedInterface_gaseous_environment', 'PlantAssociatedInterface_genetic_mod', 'PlantAssociatedInterface_geo_loc_name', 'PlantAssociatedInterface_gravity', 'PlantAssociatedInterface_growth_facil', 'PlantAssociatedInterface_growth_habit', 'PlantAssociatedInterface_growth_hormone_regm', 'PlantAssociatedInterface_herbicide_regm', 'PlantAssociatedInterface_horizon_meth', 'PlantAssociatedInterface_host_age', 'PlantAssociatedInterface_host_common_name', 'PlantAssociatedInterface_host_dry_mass', 'PlantAssociatedInterface_host_genotype', 'PlantAssociatedInterface_host_height', 'PlantAssociatedInterface_host_length', 'PlantAssociatedInterface_host_life_stage', 'PlantAssociatedInterface_host_phenotype', 'PlantAssociatedInterface_host_subspecf_genlin', 'PlantAssociatedInterface_host_symbiont', 'PlantAssociatedInterface_host_taxid', 'PlantAssociatedInterface_host_tot_mass', 'PlantAssociatedInterface_host_wet_mass', 'PlantAssociatedInterface_humidity_regm', 'PlantAssociatedInterface_lat_lon', 'PlantAssociatedInterface_light_regm', 'PlantAssociatedInterface_mechanical_damage', 'PlantAssociatedInterface_mineral_nutr_regm', 'PlantAssociatedInterface_misc_param', 'PlantAssociatedInterface_non_min_nutr_regm', 'PlantAssociatedInterface_organism_count', 'PlantAssociatedInterface_oxy_stat_samp', 'PlantAssociatedInterface_perturbation', 'PlantAssociatedInterface_pesticide_regm', 'PlantAssociatedInterface_ph_regm', 'PlantAssociatedInterface_plant_growth_med', 'PlantAssociatedInterface_plant_product', 'PlantAssociatedInterface_plant_sex', 'PlantAssociatedInterface_plant_struc', 'PlantAssociatedInterface_radiation_regm', 'PlantAssociatedInterface_rainfall_regm', 'PlantAssociatedInterface_root_cond', 'PlantAssociatedInterface_root_med_carbon', 'PlantAssociatedInterface_root_med_macronutr', 'PlantAssociatedInterface_root_med_micronutr', 'PlantAssociatedInterface_root_med_ph', 'PlantAssociatedInterface_root_med_regl', 'PlantAssociatedInterface_root_med_solid', 'PlantAssociatedInterface_root_med_suppl', 'PlantAssociatedInterface_salinity', 'PlantAssociatedInterface_salt_regm', 'PlantAssociatedInterface_samp_capt_status', 'PlantAssociatedInterface_samp_collec_device', 'PlantAssociatedInterface_samp_collec_method', 'PlantAssociatedInterface_samp_dis_stage', 'PlantAssociatedInterface_samp_mat_process', 'PlantAssociatedInterface_samp_size', 'PlantAssociatedInterface_samp_store_dur', 'PlantAssociatedInterface_samp_store_loc', 'PlantAssociatedInterface_samp_store_temp', 'PlantAssociatedInterface_season_environment', 'PlantAssociatedInterface_size_frac', 'PlantAssociatedInterface_specific_ecosystem', 'PlantAssociatedInterface_standing_water_regm', 'PlantAssociatedInterface_temp', 'PlantAssociatedInterface_tiss_cult_growth_med', 'PlantAssociatedInterface_water_temp_regm', 'PlantAssociatedInterface_watering_regm', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'air_temp_regm': SlotDefinition(name='air_temp_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='temperature value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens', alt_descriptions={}, title='air temperature regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['air temperature regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000551', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ances_data': SlotDefinition(name='ances_data', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)', alt_descriptions={}, title='ancestral data', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='A/3*B', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ancestral data'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=237, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000247', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'antibiotic_regm': SlotDefinition(name='antibiotic_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='antibiotic name;antibiotic amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens', alt_descriptions={}, title='antibiotic regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['antibiotic regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=238, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000553', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biol_stat': SlotDefinition(name='biol_stat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The level of genome modification.', alt_descriptions={}, title='biological status', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='natural', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biological status'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=239, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000858', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='biol_stat_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biotic_regm': SlotDefinition(name='biotic_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.', alt_descriptions={}, title='biotic regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='sample inoculated with Rhizobium spp. Culture', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biotic regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001038', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_mutagen': SlotDefinition(name='chem_mutagen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='mutagen name;mutagen amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens', alt_descriptions={}, title='chemical mutagen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical mutagen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=240, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000555', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'climate_environment': SlotDefinition(name='climate_environment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates', alt_descriptions={}, title='climate environment', deprecated=None, todos=['description says \"can include multiple climates\" but multivalued is set to false', 'add examples, i need to see some examples to add correctly formatted example.', 'description says \"can include multiple climates\" but multivalued is set to false', 'add examples, i need to see some examples to add correctly formatted example.'], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0001040', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'cult_root_med': SlotDefinition(name='cult_root_med', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name, PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors.', alt_descriptions={}, title='culture rooting medium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='http://himedialabs.com/TD/PT158.pdf', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['culture rooting medium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=241, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}|{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001041', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fertilizer_regm': SlotDefinition(name='fertilizer_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='fertilizer name;fertilizer amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens', alt_descriptions={}, title='fertilizer regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['fertilizer regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=242, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000556', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fungicide_regm': SlotDefinition(name='fungicide_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='fungicide name;fungicide amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens', alt_descriptions={}, title='fungicide regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['fungicide regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=243, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000557', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gaseous_environment': SlotDefinition(name='gaseous_environment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens', alt_descriptions={}, title='gaseous environment', deprecated=None, todos=[\"would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value\", \"did I do this right? keep the example that's provided and add another? so as to not override\", \"would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value\", \"did I do this right? keep the example that's provided and add another? so as to not override\"], notes=[], comments=[], examples=[Example(value='CO2; 500ppm above ambient; constant', description=None, object=None), Example(value='nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000558', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'genetic_mod': SlotDefinition(name='genetic_mod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url or free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection', alt_descriptions={}, title='genetic modification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='aox1A transgenic', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['genetic modification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=244, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000859', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gravity': SlotDefinition(name='gravity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='gravity factor value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per square second, g', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments', alt_descriptions={}, title='gravity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['gravity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=245, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000559', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'growth_facil': SlotDefinition(name='growth_facil', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text or CO', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.', alt_descriptions={}, title='growth facility', deprecated=None, todos=[], notes=['Removed from description: Alternatively use Crop Ontology (CO) terms'], comments=[], examples=[Example(value='Growth chamber [CO_715:0000189]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['growth facility'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}|{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0001043', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='GrowthFacilEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'growth_habit': SlotDefinition(name='growth_habit', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Characteristic shape, appearance or growth form of a plant species', alt_descriptions={}, title='growth habit', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='spreading', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['growth habit'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=246, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001044', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='growth_habit_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'growth_hormone_regm': SlotDefinition(name='growth_hormone_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='growth hormone name;growth hormone amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens', alt_descriptions={}, title='growth hormone regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['growth hormone regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=247, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000560', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'herbicide_regm': SlotDefinition(name='herbicide_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='herbicide name;herbicide amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='herbicide regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['herbicide regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=248, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000561', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_age': SlotDefinition(name='host_age', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='year, day, hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees', alt_descriptions={}, title='host age', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10 days', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host age'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=249, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000255', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_common_name': SlotDefinition(name='host_common_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='common name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Common name of the host.', alt_descriptions={}, title='host common name', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='human', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host common name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=250, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000248', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_dry_mass': SlotDefinition(name='host_dry_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of dry mass', alt_descriptions={}, title='host dry mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='500 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host dry mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=251, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000257', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_genotype': SlotDefinition(name='host_genotype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='genotype', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Observed genotype', alt_descriptions={}, title='host genotype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='C57BL/6', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host genotype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=252, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000365', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_height': SlotDefinition(name='host_height', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter, millimeter, meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The height of subject', alt_descriptions={}, title='host height', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.1 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host height'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=253, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000264', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_length': SlotDefinition(name='host_length', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='centimeter, millimeter, meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The length of subject', alt_descriptions={}, title='host length', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host length'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=254, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000256', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_life_stage': SlotDefinition(name='host_life_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='stage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Description of life stage of host', alt_descriptions={}, title='host life stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='adult', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host life stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=255, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000251', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_phenotype': SlotDefinition(name='host_phenotype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PATO or HP', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP', alt_descriptions={}, title='host phenotype', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='elongated [PATO:0001154]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host phenotype'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=256, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000874', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_subspecf_genlin': SlotDefinition(name='host_subspecf_genlin', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar.', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123.', alt_descriptions={}, title='host subspecific genetic lineage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='serovar:Newport, variety:glabrum, cultivar: Red Delicious', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host subspecific genetic lineage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=257, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{rank name}:{text}', singular_name=None, domain=None, slot_uri='MIXS:0001318', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_symbiont': SlotDefinition(name='host_symbiont', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='species name or common name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host.', alt_descriptions={}, title='observed host symbionts', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='flukeworms', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['observed host symbionts'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=258, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001298', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_taxid': SlotDefinition(name='host_taxid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='NCBI taxon identifier', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='NCBI taxon id of the host, e.g. 9606', alt_descriptions={}, title='host taxid', deprecated=None, todos=[], notes=[], comments=['Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host taxid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=259, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000250', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_tot_mass': SlotDefinition(name='host_tot_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total mass of the host at collection, the unit depends on host', alt_descriptions={}, title='host total mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2500 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host total mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=260, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000263', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'host_wet_mass': SlotDefinition(name='host_wet_mass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of wet mass', alt_descriptions={}, title='host wet mass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1500 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['host wet mass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=261, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000567', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'humidity_regm': SlotDefinition(name='humidity_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='humidity value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='humidity regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['humidity regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000568', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'light_regm': SlotDefinition(name='light_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='exposure type;light intensity;light quality', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='lux; micrometer, nanometer, angstrom', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about treatment(s) involving exposure to light, including both light intensity and quality.', alt_descriptions={}, title='light regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='incandescant light;10 lux;450 nanometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['light regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000569', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mechanical_damage': SlotDefinition(name='mechanical_damage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='damage type;body site', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about any mechanical damage exerted on the plant; can include multiple damages and sites', alt_descriptions={}, title='mechanical damage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='pruning;bark', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mechanical damage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=262, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{text}', singular_name=None, domain=None, slot_uri='MIXS:0001052', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mineral_nutr_regm': SlotDefinition(name='mineral_nutr_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='mineral nutrient name;mineral nutrient amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens', alt_descriptions={}, title='mineral nutrient regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mineral nutrient regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=263, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000570', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'non_min_nutr_regm': SlotDefinition(name='non_min_nutr_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens', alt_descriptions={}, title='non-mineral nutrient regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['non-mineral nutrient regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=264, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000571', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pesticide_regm': SlotDefinition(name='pesticide_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='pesticide name;pesticide amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens', alt_descriptions={}, title='pesticide regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pesticide regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=265, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000573', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_regm': SlotDefinition(name='ph_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;treatment interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen', alt_descriptions={}, title='pH regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=266, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0001056', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'plant_growth_med': SlotDefinition(name='plant_growth_med', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='EO or enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary', alt_descriptions={}, title='plant growth medium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='hydroponic plant culture media [EO:0007067]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['plant growth medium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=267, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001057', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'plant_product': SlotDefinition(name='plant_product', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='product name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Substance produced by the plant, where the sample was obtained from', alt_descriptions={}, title='plant product', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='xylem sap [PO:0025539]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['plant product'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=268, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001058', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'plant_sex': SlotDefinition(name='plant_sex', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite.', alt_descriptions={}, title='plant sex', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Hermaphroditic', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['plant sex'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=269, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001059', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='plant_sex_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'plant_struc': SlotDefinition(name='plant_struc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PO', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here.', alt_descriptions={}, title='plant structure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='epidermis [PO:0005679]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['plant structure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=270, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0001060', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'radiation_regm': SlotDefinition(name='radiation_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='radiation type name;radiation amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='rad, gray', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens', alt_descriptions={}, title='radiation regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['radiation regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=271, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000575', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'rainfall_regm': SlotDefinition(name='rainfall_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='rainfall regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rainfall regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=272, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000576', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_cond': SlotDefinition(name='root_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url or free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container.', alt_descriptions={}, title='rooting conditions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='http://himedialabs.com/TD/PT158.pdf', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting conditions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=273, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001061', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_carbon': SlotDefinition(name='root_med_carbon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='carbon source name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Source of organic carbon in the culture rooting medium; e.g. sucrose.', alt_descriptions={}, title='rooting medium carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='sucrose', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=274, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000577', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_macronutr': SlotDefinition(name='root_med_macronutr', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='macronutrient name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L).', alt_descriptions={}, title='rooting medium macronutrients', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='KH2PO4;170¬†milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium macronutrients'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=275, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000578', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_micronutr': SlotDefinition(name='root_med_micronutr', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='micronutrient name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L).', alt_descriptions={}, title='rooting medium micronutrients', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='H3BO3;6.2¬†milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium micronutrients'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=276, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000579', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_ph': SlotDefinition(name='root_med_ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the culture rooting medium; e.g. 5.5.', alt_descriptions={}, title='rooting medium pH', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='7.5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=277, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001062', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_regl': SlotDefinition(name='root_med_regl', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='regulator name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA.', alt_descriptions={}, title='rooting medium regulators', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='abscisic acid;0.75 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium regulators'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=278, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000581', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_solid': SlotDefinition(name='root_med_solid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Specification of the solidifying agent in the culture rooting medium; e.g. agar.', alt_descriptions={}, title='rooting medium solidifier', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium solidifier'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=279, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001063', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'root_med_suppl': SlotDefinition(name='root_med_suppl', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='supplement name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L).', alt_descriptions={}, title='rooting medium organic supplements', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='nicotinic acid;0.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['rooting medium organic supplements'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=280, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000580', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salt_regm': SlotDefinition(name='salt_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='salt name;salt amount;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, mole per liter, gram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens', alt_descriptions={}, title='salt regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salt regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=281, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000582', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_capt_status': SlotDefinition(name='samp_capt_status', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reason for the sample', alt_descriptions={}, title='sample capture status', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='farm sample', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample capture status'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=282, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000860', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_capt_status_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_dis_stage': SlotDefinition(name='samp_dis_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen.', alt_descriptions={}, title='sample disease stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='infection', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample disease stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=283, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000249', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='samp_dis_stage_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'season_environment': SlotDefinition(name='season_environment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='seasonal environment name;treatment interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment', alt_descriptions={}, title='seasonal environment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['seasonal environment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=284, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0001068', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'standing_water_regm': SlotDefinition(name='standing_water_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='standing water type;treatment interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description=\"Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens\", alt_descriptions={}, title='standing water regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['standing water regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=286, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0001069', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tiss_cult_growth_med': SlotDefinition(name='tiss_cult_growth_med', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url or free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Description of plant tissue culture growth media used', alt_descriptions={}, title='tissue culture growth media', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='https://link.springer.com/content/pdf/10.1007/BF02796489.pdf', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['tissue culture growth media'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=287, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001070', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_temp_regm': SlotDefinition(name='water_temp_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='water temperature regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water temperature regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=288, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000590', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'watering_regm': SlotDefinition(name='watering_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='watering regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None), Example(value='75% water holding capacity; constant', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000591', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:PlantAssociatedInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'SedimentInterface': ClassDefinition(name='SedimentInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SedimentInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='sediment dh_interface', alt_descriptions={}, title='Sediment', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alkalinity', 'alkyl_diethers', 'aminopept_act', 'ammonium', 'bacteria_carb_prod', 'biomass', 'bishomohopanol', 'bromide', 'calcium', 'carb_nitro_ratio', 'chem_administration', 'chloride', 'chlorophyll', 'collection_date', 'density', 'depth', 'diether_lipids', 'diss_carb_dioxide', 'diss_hydrogen', 'diss_inorg_carb', 'diss_org_carb', 'diss_org_nitro', 'diss_oxygen', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'geo_loc_name', 'glucosidase_act', 'horizon_meth', 'lat_lon', 'magnesium', 'mean_frict_vel', 'mean_peak_frict_vel', 'methane', 'misc_param', 'n_alkanes', 'nitrate', 'nitrite', 'nitro', 'org_carb', 'org_matter', 'org_nitro', 'organism_count', 'oxy_stat_samp', 'part_org_carb', 'particle_class', 'perturbation', 'petroleum_hydrocarb', 'ph', 'ph_meth', 'phaeopigments', 'phosphate', 'phosplipid_fatt_acid', 'porosity', 'potassium', 'pressure', 'redox_potential', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'SedimentInterface_sample_link', 'sediment_type', 'silicate', 'size_frac', 'sodium', 'specific_ecosystem', 'sulfate', 'sulfide', 'temp', 'tidal_stage', 'tot_carb', 'tot_depth_water_col', 'tot_nitro_content', 'tot_org_carb', 'turbidity', 'water_content', 'SedimentInterface_alkalinity', 'SedimentInterface_alkyl_diethers', 'SedimentInterface_aminopept_act', 'SedimentInterface_ammonium', 'SedimentInterface_bacteria_carb_prod', 'SedimentInterface_biomass', 'SedimentInterface_bishomohopanol', 'SedimentInterface_bromide', 'SedimentInterface_calcium', 'SedimentInterface_carb_nitro_ratio', 'SedimentInterface_chem_administration', 'SedimentInterface_chloride', 'SedimentInterface_chlorophyll', 'SedimentInterface_collection_date', 'SedimentInterface_density', 'SedimentInterface_depth', 'SedimentInterface_diether_lipids', 'SedimentInterface_diss_carb_dioxide', 'SedimentInterface_diss_hydrogen', 'SedimentInterface_diss_inorg_carb', 'SedimentInterface_diss_org_carb', 'SedimentInterface_diss_org_nitro', 'SedimentInterface_diss_oxygen', 'SedimentInterface_ecosystem', 'SedimentInterface_ecosystem_category', 'SedimentInterface_ecosystem_subtype', 'SedimentInterface_ecosystem_type', 'SedimentInterface_elev', 'SedimentInterface_env_broad_scale', 'SedimentInterface_env_local_scale', 'SedimentInterface_env_medium', 'SedimentInterface_env_package', 'SedimentInterface_experimental_factor', 'SedimentInterface_geo_loc_name', 'SedimentInterface_glucosidase_act', 'SedimentInterface_horizon_meth', 'SedimentInterface_lat_lon', 'SedimentInterface_magnesium', 'SedimentInterface_mean_frict_vel', 'SedimentInterface_mean_peak_frict_vel', 'SedimentInterface_methane', 'SedimentInterface_misc_param', 'SedimentInterface_n_alkanes', 'SedimentInterface_nitrate', 'SedimentInterface_nitrite', 'SedimentInterface_nitro', 'SedimentInterface_org_carb', 'SedimentInterface_org_matter', 'SedimentInterface_org_nitro', 'SedimentInterface_organism_count', 'SedimentInterface_oxy_stat_samp', 'SedimentInterface_part_org_carb', 'SedimentInterface_particle_class', 'SedimentInterface_perturbation', 'SedimentInterface_petroleum_hydrocarb', 'SedimentInterface_ph', 'SedimentInterface_ph_meth', 'SedimentInterface_phaeopigments', 'SedimentInterface_phosphate', 'SedimentInterface_phosplipid_fatt_acid', 'SedimentInterface_porosity', 'SedimentInterface_potassium', 'SedimentInterface_pressure', 'SedimentInterface_redox_potential', 'SedimentInterface_salinity', 'SedimentInterface_samp_collec_device', 'SedimentInterface_samp_collec_method', 'SedimentInterface_samp_mat_process', 'SedimentInterface_samp_size', 'SedimentInterface_samp_store_dur', 'SedimentInterface_samp_store_loc', 'SedimentInterface_samp_store_temp', 'SedimentInterface_sediment_type', 'SedimentInterface_silicate', 'SedimentInterface_size_frac', 'SedimentInterface_sodium', 'SedimentInterface_specific_ecosystem', 'SedimentInterface_sulfate', 'SedimentInterface_sulfide', 'SedimentInterface_temp', 'SedimentInterface_tidal_stage', 'SedimentInterface_tot_carb', 'SedimentInterface_tot_depth_water_col', 'SedimentInterface_tot_nitro_content', 'SedimentInterface_tot_org_carb', 'SedimentInterface_turbidity', 'SedimentInterface_water_content', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkyl_diethers': SlotDefinition(name='alkyl_diethers', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of alkyl diethers', alt_descriptions={}, title='alkyl diethers', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.005 mole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkyl diethers'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000490', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aminopept_act': SlotDefinition(name='aminopept_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of aminopeptidase activity', alt_descriptions={}, title='aminopeptidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.269 mole per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aminopeptidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000172', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bacteria_carb_prod': SlotDefinition(name='bacteria_carb_prod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of bacterial carbon production', alt_descriptions={}, title='bacterial carbon production', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.53 microgram per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bacterial carbon production'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000173', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biomass': SlotDefinition(name='biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='biomass type;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ton, kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements', alt_descriptions={}, title='biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total;20 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biomass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000174', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bishomohopanol': SlotDefinition(name='bishomohopanol', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, microgram per gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bishomohopanol', alt_descriptions={}, title='bishomohopanol', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='14 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bishomohopanol'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000175', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bromide': SlotDefinition(name='bromide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bromide', alt_descriptions={}, title='bromide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bromide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000176', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_nitro_ratio': SlotDefinition(name='carb_nitro_ratio', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ratio of amount or concentrations of carbon to nitrogen', alt_descriptions={}, title='carbon/nitrogen ratio', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.417361111', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon/nitrogen ratio'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000310', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chlorophyll': SlotDefinition(name='chlorophyll', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter, microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chlorophyll', alt_descriptions={}, title='chlorophyll', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chlorophyll'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000177', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'density': SlotDefinition(name='density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter, gram per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Density of the sample, which is its mass per unit volume (aka volumetric mass density)', alt_descriptions={}, title='density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1000 kilogram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000435', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diether_lipids': SlotDefinition(name='diether_lipids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='diether lipid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of diether lipids; can include multiple types of diether lipids', alt_descriptions={}, title='diether lipids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 nanogram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['diether lipids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000178', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_hydrogen': SlotDefinition(name='diss_hydrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved hydrogen', alt_descriptions={}, title='dissolved hydrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved hydrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000179', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_carb': SlotDefinition(name='diss_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid', alt_descriptions={}, title='dissolved organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='197 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000433', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_nitro': SlotDefinition(name='diss_org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2', alt_descriptions={}, title='dissolved organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000162', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen': SlotDefinition(name='diss_oxygen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen', alt_descriptions={}, title='dissolved oxygen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='175 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000119', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'glucosidase_act': SlotDefinition(name='glucosidase_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mol per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of glucosidase activity', alt_descriptions={}, title='glucosidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mol per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['glucosidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000137', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'magnesium': SlotDefinition(name='magnesium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter, milligram per liter, parts per million, micromole per kilogram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of magnesium in the sample', alt_descriptions={}, title='magnesium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='52.8 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['magnesium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000431', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_frict_vel': SlotDefinition(name='mean_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean friction velocity', alt_descriptions={}, title='mean friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=22, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000498', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_peak_frict_vel': SlotDefinition(name='mean_peak_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean peak friction velocity', alt_descriptions={}, title='mean peak friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean peak friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000502', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'methane': SlotDefinition(name='methane', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, parts per billion, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Methane (gas) amount or concentration at the time of sampling', alt_descriptions={}, title='methane', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1800 parts per billion', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['methane'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000101', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'n_alkanes': SlotDefinition(name='n_alkanes', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='n-alkane name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of n-alkanes; can include multiple n-alkanes', alt_descriptions={}, title='n-alkanes', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='n-hexadecane;100 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['n-alkanes'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000503', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitro': SlotDefinition(name='nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrogen (total)', alt_descriptions={}, title='nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=28, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000504', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_carb': SlotDefinition(name='org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic carbon', alt_descriptions={}, title='organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=29, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000508', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_matter': SlotDefinition(name='org_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic matter', alt_descriptions={}, title='organic matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.75 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000204', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro': SlotDefinition(name='org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic nitrogen', alt_descriptions={}, title='organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000205', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'part_org_carb': SlotDefinition(name='part_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of particulate organic carbon', alt_descriptions={}, title='particulate organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.92 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['particulate organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=31, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000515', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'particle_class': SlotDefinition(name='particle_class', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='particle name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrometer', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values', alt_descriptions={}, title='particle classification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['particle classification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=32, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000206', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'petroleum_hydrocarb': SlotDefinition(name='petroleum_hydrocarb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of petroleum hydrocarbon', alt_descriptions={}, title='petroleum hydrocarbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['petroleum hydrocarbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=34, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000516', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phaeopigments': SlotDefinition(name='phaeopigments', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phaeopigment name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phaeopigments; can include multiple phaeopigments', alt_descriptions={}, title='phaeopigments', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phaeopigments'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=35, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000180', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosplipid_fatt_acid': SlotDefinition(name='phosplipid_fatt_acid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phospholipid fatty acid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per gram, mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phospholipid fatty acids; can include multiple values', alt_descriptions={}, title='phospholipid fatty acid', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.98 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phospholipid fatty acid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=36, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000181', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'porosity': SlotDefinition(name='porosity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value or range', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Porosity of deposited sediment is volume of voids divided by the total volume of sample', alt_descriptions={}, title='porosity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['porosity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} - {float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000211', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'redox_potential': SlotDefinition(name='redox_potential', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millivolt', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential', alt_descriptions={}, title='redox potential', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='300 millivolt', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['redox potential'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=40, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000182', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sediment_type': SlotDefinition(name='sediment_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about the sediment type based on major constituents', alt_descriptions={}, title='sediment type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='biogenous', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sediment type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=42, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001078', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='sediment_type_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'silicate': SlotDefinition(name='silicate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of silicate', alt_descriptions={}, title='silicate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['silicate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=43, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000184', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tidal_stage': SlotDefinition(name='tidal_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Stage of tide', alt_descriptions={}, title='tidal stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='high tide', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['tidal stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000750', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='tidal_stage_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_carb': SlotDefinition(name='tot_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total carbon content', alt_descriptions={}, title='total carbon', deprecated=None, todos=['is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\", 'is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\"], notes=[], comments=[], examples=[Example(value='1 ug/L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000525', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_depth_water_col': SlotDefinition(name='tot_depth_water_col', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of total depth of water column', alt_descriptions={}, title='total depth of water column', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='500 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total depth of water column'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000634', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro_content': SlotDefinition(name='tot_nitro_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total nitrogen content of the sample', alt_descriptions={}, title='total nitrogen content', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=48, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000530', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_org_carb': SlotDefinition(name='tot_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content', alt_descriptions={}, title='total organic carbon', deprecated=None, todos=['check description. How are they different?', 'check description. How are they different?'], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=50, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000533', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'turbidity': SlotDefinition(name='turbidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='formazin turbidity unit, formazin nephelometric units', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measure of the amount of cloudiness or haziness in water caused by individual particles', alt_descriptions={}, title='turbidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 nephelometric turbidity units', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['turbidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000191', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_content': SlotDefinition(name='water_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='string', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per gram or cubic centimeter per cubic centimeter', extensions={}, annotations={})}, description='Water content measurement', alt_descriptions={}, title='water content', deprecated=None, todos=['value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?', 'value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?'], notes=[], comments=[], examples=[Example(value='75%', description=None, object=None), Example(value='75 %', description=None, object=None), Example(value='0.75 g water/g dry soil', description=None, object=None), Example(value='75% water holding capacity', description=None, object=None), Example(value='1.1 g fresh weight/ dry weight', description=None, object=None), Example(value='10% water filled pore space', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float or pct} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000185', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\\\S.+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:SedimentInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'SoilInterface': ClassDefinition(name='SoilInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SoilInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='soil dh_interface', alt_descriptions={}, title='Soil', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin', 'SoilMixsInspiredMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['agrochem_addition', 'air_temp_regm', 'al_sat', 'al_sat_meth', 'ammonium_nitrogen', 'annual_precpt', 'annual_temp', 'biotic_regm', 'biotic_relationship', 'carb_nitro_ratio', 'chem_administration', 'climate_environment', 'collection_date', 'SoilInterface_collection_date_inc', 'SoilInterface_collection_time', 'SoilInterface_collection_time_inc', 'crop_rotation', 'cur_land_use', 'cur_vegetation', 'cur_vegetation_meth', 'depth', 'drainage_class', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'SoilInterface_experimental_factor_other', 'extreme_event', 'fao_class', 'SoilInterface_filter_method', 'fire', 'flooding', 'gaseous_environment', 'geo_loc_name', 'growth_facil', 'heavy_metals', 'heavy_metals_meth', 'horizon_meth', 'humidity_regm', 'SoilInterface_isotope_exposure', 'lat_lon', 'lbc_thirty', 'lbceq', 'light_regm', 'link_class_info', 'link_climate_info', 'local_class', 'local_class_meth', 'manganese', 'SoilInterface_micro_biomass_c_meth', 'micro_biomass_c_meth', 'micro_biomass_meth', 'SoilInterface_micro_biomass_n_meth', 'micro_biomass_n_meth', 'microbial_biomass', 'SoilInterface_microbial_biomass_c', 'microbial_biomass_c', 'SoilInterface_microbial_biomass_n', 'microbial_biomass_n', 'misc_param', 'nitrate_nitrogen', 'nitrite_nitrogen', 'SoilInterface_non_microb_biomass', 'SoilInterface_non_microb_biomass_method', 'org_matter', 'org_nitro', 'SoilInterface_org_nitro_method', 'SoilInterface_other_treatment', 'oxy_stat_samp', 'ph', 'ph_meth', 'phosphate', 'prev_land_use_meth', 'previous_land_use', 'profile_position', 'salinity', 'salinity_meth', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_temp', 'SoilInterface_sample_link', 'season_precpt', 'season_temp', 'sieving', 'size_frac_low', 'size_frac_up', 'slope_aspect', 'slope_gradient', 'soil_horizon', 'soil_text_measure', 'soil_texture_meth', 'soil_type', 'soil_type_meth', 'specific_ecosystem', 'SoilInterface_start_date_inc', 'SoilInterface_start_time_inc', 'store_cond', 'temp', 'tillage', 'tot_carb', 'tot_nitro_cont_meth', 'tot_nitro_content', 'tot_org_c_meth', 'tot_org_carb', 'tot_phosp', 'water_cont_soil_meth', 'water_content', 'watering_regm', 'zinc', 'SoilInterface_agrochem_addition', 'SoilInterface_air_temp_regm', 'SoilInterface_al_sat', 'SoilInterface_al_sat_meth', 'SoilInterface_ammonium_nitrogen', 'SoilInterface_annual_precpt', 'SoilInterface_annual_temp', 'SoilInterface_biotic_regm', 'SoilInterface_biotic_relationship', 'SoilInterface_carb_nitro_ratio', 'SoilInterface_chem_administration', 'SoilInterface_climate_environment', 'SoilInterface_collection_date', 'SoilInterface_crop_rotation', 'SoilInterface_cur_land_use', 'SoilInterface_cur_vegetation', 'SoilInterface_cur_vegetation_meth', 'SoilInterface_depth', 'SoilInterface_drainage_class', 'SoilInterface_ecosystem', 'SoilInterface_ecosystem_category', 'SoilInterface_ecosystem_subtype', 'SoilInterface_ecosystem_type', 'SoilInterface_elev', 'SoilInterface_env_broad_scale', 'SoilInterface_env_local_scale', 'SoilInterface_env_medium', 'SoilInterface_env_package', 'SoilInterface_experimental_factor', 'SoilInterface_extreme_event', 'SoilInterface_fao_class', 'SoilInterface_fire', 'SoilInterface_flooding', 'SoilInterface_gaseous_environment', 'SoilInterface_geo_loc_name', 'SoilInterface_growth_facil', 'SoilInterface_heavy_metals', 'SoilInterface_heavy_metals_meth', 'SoilInterface_horizon_meth', 'SoilInterface_humidity_regm', 'SoilInterface_lat_lon', 'SoilInterface_lbc_thirty', 'SoilInterface_lbceq', 'SoilInterface_light_regm', 'SoilInterface_link_class_info', 'SoilInterface_link_climate_info', 'SoilInterface_local_class', 'SoilInterface_local_class_meth', 'SoilInterface_manganese', 'SoilInterface_micro_biomass_meth', 'SoilInterface_microbial_biomass', 'SoilInterface_misc_param', 'SoilInterface_nitrate_nitrogen', 'SoilInterface_nitrite_nitrogen', 'SoilInterface_org_matter', 'SoilInterface_org_nitro', 'SoilInterface_oxy_stat_samp', 'SoilInterface_ph', 'SoilInterface_ph_meth', 'SoilInterface_phosphate', 'SoilInterface_prev_land_use_meth', 'SoilInterface_previous_land_use', 'SoilInterface_profile_position', 'SoilInterface_salinity', 'SoilInterface_salinity_meth', 'SoilInterface_samp_collec_device', 'SoilInterface_samp_collec_method', 'SoilInterface_samp_mat_process', 'SoilInterface_samp_size', 'SoilInterface_samp_store_temp', 'SoilInterface_season_precpt', 'SoilInterface_season_temp', 'SoilInterface_sieving', 'SoilInterface_size_frac_low', 'SoilInterface_size_frac_up', 'SoilInterface_slope_aspect', 'SoilInterface_slope_gradient', 'SoilInterface_soil_horizon', 'SoilInterface_soil_text_measure', 'SoilInterface_soil_texture_meth', 'SoilInterface_soil_type', 'SoilInterface_soil_type_meth', 'SoilInterface_specific_ecosystem', 'SoilInterface_store_cond', 'SoilInterface_temp', 'SoilInterface_tillage', 'SoilInterface_tot_carb', 'SoilInterface_tot_nitro_cont_meth', 'SoilInterface_tot_nitro_content', 'SoilInterface_tot_org_c_meth', 'SoilInterface_tot_org_carb', 'SoilInterface_tot_phosp', 'SoilInterface_water_cont_soil_meth', 'SoilInterface_water_content', 'SoilInterface_watering_regm', 'SoilInterface_zinc', 'SoilInterface_organism_count', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'agrochem_addition': SlotDefinition(name='agrochem_addition', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='agrochemical name;agrochemical amount;timestamp', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Addition of fertilizers, pesticides, etc. - amount and time of applications', alt_descriptions={}, title='history/agrochemical additions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='roundup;5 milligram per liter;2018-06-21', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['history/agrochemical additions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000639', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='.*', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'air_temp_regm': SlotDefinition(name='air_temp_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='temperature value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens', alt_descriptions={}, title='air temperature regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['air temperature regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000551', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'al_sat': SlotDefinition(name='al_sat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The relative abundance of aluminum in the sample', alt_descriptions={}, title='aluminum saturation/ extreme unusual properties', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.\", 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.\"], notes=[], comments=['Aluminum saturation is the percentage of the CEC occupies by aluminum. Like all cations, aluminum held by the cation exchange complex is in equilibrium with aluminum in the soil solution.'], examples=[Example(value='0.27', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000607', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'al_sat_meth': SlotDefinition(name='al_sat_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining Aluminum saturation', alt_descriptions={}, title='aluminum saturation method/ extreme unusual properties', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts?\", 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts?\"], notes=[], comments=['Required when aluminum saturation is provided.'], examples=[Example(value='https://doi.org/10.1371/journal.pone.0176357', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000324', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium_nitrogen': SlotDefinition(name='ammonium_nitrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mg/kg', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium nitrogen in the sample', alt_descriptions={}, title='ammonium nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.3 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium_nitrogen', 'NH4-N'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1005, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'annual_precpt': SlotDefinition(name='annual_precpt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.', alt_descriptions={}, title='mean annual precipitation', deprecated=None, todos=['This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot', 'This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=[], examples=[Example(value='8.94 inch', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000644', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'annual_temp': SlotDefinition(name='annual_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Mean annual temperature', alt_descriptions={}, title='mean annual temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='12.5 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean annual temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000642', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biotic_regm': SlotDefinition(name='biotic_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi.', alt_descriptions={}, title='biotic regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='sample inoculated with Rhizobium spp. Culture', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biotic regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001038', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biotic_relationship': SlotDefinition(name='biotic_relationship', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={})}, description='Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object', alt_descriptions={}, title='observed biotic relationship', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='free living', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['observed biotic relationship'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=22, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000028', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='biotic_relationship_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_nitro_ratio': SlotDefinition(name='carb_nitro_ratio', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ratio of amount or concentrations of carbon to nitrogen', alt_descriptions={}, title='carbon/nitrogen ratio', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.417361111', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon/nitrogen ratio'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000310', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'climate_environment': SlotDefinition(name='climate_environment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates', alt_descriptions={}, title='climate environment', deprecated=None, todos=['description says \"can include multiple climates\" but multivalued is set to false', 'add examples, i need to see some examples to add correctly formatted example.', 'description says \"can include multiple climates\" but multivalued is set to false', 'add examples, i need to see some examples to add correctly formatted example.'], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0001040', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date_inc': SlotDefinition(name='collection_date_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Date the incubation was harvested/collected/ended. Only relevant for incubation samples.', alt_descriptions={}, title='incubation collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only'], comments=['Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable.'], examples=[Example(value='2021-04-15, 2021-04 and 2021 are all acceptable.', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_time': SlotDefinition(name='collection_time', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The time of sampling, either as an instance (single point) or interval.', alt_descriptions={}, title='collection time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_time_inc': SlotDefinition(name='collection_time_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Time the incubation was harvested/collected/ended. Only relevant for incubation samples.', alt_descriptions={}, title='incubation collection time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'crop_rotation': SlotDefinition(name='crop_rotation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='crop rotation status;schedule', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Whether or not crop is rotated, and if yes, rotation schedule', alt_descriptions={}, title='history/crop rotation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='yes;R2/2017-01-01/2018-12-31/P6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['history/crop rotation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{boolean};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000318', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'cur_land_use': SlotDefinition(name='cur_land_use', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Present state of sample site', alt_descriptions={}, title='current land use', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='conifers', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['current land use'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001080', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='cur_land_use_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'cur_vegetation': SlotDefinition(name='cur_vegetation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Vegetation classification from one or more standard classification systems, or agricultural crop', alt_descriptions={}, title='current vegetation', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Recommend changing this from text value to some king of ontology?', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Recommend changing this from text value to some kind of ontology?'], notes=[], comments=['Values provided here can be specific species of vegetation or vegetation regions', 'See for vegetation regions- https://education.nationalgeographic.org/resource/vegetation-region'], examples=[Example(value='deciduous forest', description=None, object=None), Example(value='forest', description=None, object=None), Example(value='Bauhinia variegata', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000312', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'cur_vegetation_meth': SlotDefinition(name='cur_vegetation_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in vegetation classification', alt_descriptions={}, title='current vegetation method', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', \"I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided.\", 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', \"I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided.\"], notes=[], comments=['Required when current vegetation is provided.'], examples=[Example(value='https://doi.org/10.1111/j.1654-109X.2011.01154.x', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000314', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'drainage_class': SlotDefinition(name='drainage_class', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Drainage classification from a standard system such as the USDA system', alt_descriptions={}, title='drainage classification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='well', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['drainage classification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001085', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='drainage_class_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EcosystemEnum', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EcosystemCategoryEnum', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EcosystemSubtypeEnum', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EcosystemTypeEnum', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EnvBroadScaleSoilEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EnvLocalScaleSoilEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='EnvMediumSoilEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor_other': SlotDefinition(name='experimental_factor_other', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Other details about your sample that you feel can't be accurately represented in the available columns.\", alt_descriptions={}, title='experimental factor- other', deprecated=None, todos=[], notes=[], comments=['This slot accepts open-ended text about your sample.', 'We recommend using key:value pairs.', 'Provided pairs will be considered for inclusion as future slots/terms in this data collection template.'], examples=[Example(value='experimental treatment: value', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:experimental_factor|additional_info'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'extreme_event': SlotDefinition(name='extreme_event', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date, string', extensions={}, annotations={})}, description='Unusual physical events that may have affected microbial populations', alt_descriptions={}, title='history/extreme events', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=[], examples=[Example(value='1980-05-18, volcanic eruption', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000320', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fao_class': SlotDefinition(name='fao_class', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups', alt_descriptions={}, title='soil_taxonomic/FAO classification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Luvisols', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil_taxonomic/FAO classification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001083', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='fao_class_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'filter_method': SlotDefinition(name='filter_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Type of filter used or how the sample was filtered', alt_descriptions={}, title='filter method', deprecated=None, todos=[], notes=[], comments=['describe the filter or provide a catalog number and manufacturer'], examples=[Example(value='C18', description=None, object=None), Example(value='Basix PES, 13-100-106 FisherSci', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:filter_type'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fire': SlotDefinition(name='fire', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date string', extensions={}, annotations={})}, description='Historical and/or physical evidence of fire', alt_descriptions={}, title='history/fire', deprecated=None, todos=['is \"to\" acceptable? Is there a better way to request that be written?', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'is \"to\" acceptable? Is there a better way to request that be written?', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=['Provide the date the fire occurred. If extended burning occurred provide the date range.'], examples=[Example(value='1871-10-10', description=None, object=None), Example(value='1871-10-01 to 1871-10-31', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001086', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?(\\\\s+to\\\\s+[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'flooding': SlotDefinition(name='flooding', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date string', extensions={}, annotations={})}, description='Historical and/or physical evidence of flooding', alt_descriptions={}, title='history/flooding', deprecated=None, todos=['is \"to\" acceptable? Is there a better way to request that be written?', 'What about if the \"day\" isn\\'t known? Is this ok?', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'is \"to\" acceptable? Is there a better way to request that be written?', 'What about if the \"day\" isn\\'t known? Is this ok?', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=['Provide the date the flood occurred. If extended flooding occurred provide the date range.'], examples=[Example(value='1927-04-15', description=None, object=None), Example(value='1927-04 to 1927-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000319', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gaseous_environment': SlotDefinition(name='gaseous_environment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens', alt_descriptions={}, title='gaseous environment', deprecated=None, todos=[\"would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value\", \"did I do this right? keep the example that's provided and add another? so as to not override\", \"would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value\", \"did I do this right? keep the example that's provided and add another? so as to not override\"], notes=[], comments=[], examples=[Example(value='CO2; 500ppm above ambient; constant', description=None, object=None), Example(value='nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000558', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'growth_facil': SlotDefinition(name='growth_facil', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='free text or CO', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.', alt_descriptions={}, title='growth facility', deprecated=None, todos=[], notes=['Removed from description: Alternatively use Crop Ontology (CO) terms'], comments=[], examples=[Example(value='Growth chamber [CO_715:0000189]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['growth facility'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}|{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0001043', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='GrowthFacilEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heavy_metals': SlotDefinition(name='heavy_metals', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Heavy metals present in the sample and their concentrations.', alt_descriptions={}, title='heavy metals/ extreme unusual properties', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.\", 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate?', \"I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement.\"], notes=[\"Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal.\", \"Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal.\"], comments=['For multiple heavy metals and concentrations, separate by ;'], examples=[Example(value='mercury 0.09 micrograms per gram', description=None, object=None), Example(value='mercury 0.09 ug/g; chromium 0.03 ug/g', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000652', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'heavy_metals_meth': SlotDefinition(name='heavy_metals_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining heavy metals', alt_descriptions={}, title='heavy metals method/ extreme unusual properties', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=['Required when heavy metals are provided', 'If different methods are used for multiple metals, indicate the metal and method. Separate metals by ;'], examples=[Example(value='https://doi.org/10.3390/ijms9040434', description=None, object=None), Example(value='mercury https://doi.org/10.1007/BF01056090; chromium https://doi.org/10.1007/s00216-006-0322-8', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000343', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='soil horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'humidity_regm': SlotDefinition(name='humidity_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='humidity value;treatment interval and duration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='humidity regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['humidity regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000568', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'isotope_exposure': SlotDefinition(name='isotope_exposure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='List isotope exposure or addition applied to your sample.', alt_descriptions={}, title='isotope exposure/addition', deprecated=None, todos=['Can we make the H218O correctly super and subscripted?'], notes=[], comments=['This is required when your experimental design includes the use of isotopically labeled compounds'], examples=[Example(value='13C glucose', description=None, object=None), Example(value='H218O', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:chem_administration'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}; {timestamp}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]; ([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lbc_thirty': SlotDefinition(name='lbc_thirty', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ppm CaCO3/pH', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='lime buffer capacity, determined after 30 minute incubation', alt_descriptions={}, title='lime buffer capacity (at 30 minutes)', deprecated=None, todos=[], notes=[], comments=['This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit'], examples=[Example(value='543 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0', 'https://secure.caes.uga.edu/extension/publications/files/pdf/C%20874_5.PDF'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['lbc_thirty', 'lbc30', 'lime buffer capacity (at 30 minutes)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1001, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lbceq': SlotDefinition(name='lbceq', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ppm CaCO3/pH', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='lime buffer capacity, determined at equilibrium after 5 day incubation', alt_descriptions={}, title='lime buffer capacity (after 5 day incubation)', deprecated=None, todos=[], notes=[], comments=['This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit'], examples=[Example(value='1575 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['lbceq', 'lime buffer capacity (at 5-day equilibrium)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1002, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'light_regm': SlotDefinition(name='light_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='exposure type;light intensity;light quality', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='lux; micrometer, nanometer, angstrom', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Information about treatment(s) involving exposure to light, including both light intensity and quality.', alt_descriptions={}, title='light regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='incandescant light;10 lux;450 nanometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['light regimen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000569', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'link_class_info': SlotDefinition(name='link_class_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Link to digitized soil maps or other soil classification information', alt_descriptions={}, title='link to classification information', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['link to classification information'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000329', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'link_climate_info': SlotDefinition(name='link_climate_info', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Link to climate resource', alt_descriptions={}, title='link to climate information', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['link to climate information'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=21, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000328', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'local_class': SlotDefinition(name='local_class', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='local classification name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Soil classification based on local soil classification system', alt_descriptions={}, title='soil_taxonomic/local classification', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil_taxonomic/local classification'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=22, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000330', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'local_class_meth': SlotDefinition(name='local_class_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the local soil classification', alt_descriptions={}, title='soil_taxonomic/local classification method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil_taxonomic/local classification method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=24, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000331', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'manganese': SlotDefinition(name='manganese', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mg/kg (ppm)', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of manganese in the sample', alt_descriptions={}, title='manganese', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='24.7 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['manganese'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1003, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'micro_biomass_c_meth': SlotDefinition(name='micro_biomass_c_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining microbial biomass carbon', alt_descriptions={}, title='microbial biomass carbon method', deprecated=None, todos=['How should we separate values? | or ;? lets be consistent'], notes=[], comments=['required if \"microbial_biomass_c\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(87)90052-6', description=None, object=None), Example(value='https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:micro_biomass_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'micro_biomass_meth': SlotDefinition(name='micro_biomass_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining microbial biomass', alt_descriptions={}, title='microbial biomass method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['microbial biomass method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=43, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000339', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'micro_biomass_n_meth': SlotDefinition(name='micro_biomass_n_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining microbial biomass nitrogen', alt_descriptions={}, title='microbial biomass nitrogen method', deprecated=None, todos=[], notes=[], comments=['required if \"microbial_biomass_n\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(87)90052-6', description=None, object=None), Example(value='https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:micro_biomass_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'microbial_biomass': SlotDefinition(name='microbial_biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ton, kilogram, gram per kilogram soil', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. If you keep this, you would need to have correction factors used for conversion to the final units', alt_descriptions={}, title='microbial biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['microbial biomass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=42, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000650', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'microbial_biomass_c': SlotDefinition(name='microbial_biomass_c', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.', alt_descriptions={}, title='microbial biomass carbon', deprecated=None, todos=[], notes=[], comments=['If you provide this, correction factors used for conversion to the final units and method are required'], examples=[Example(value='0.05 ug C/g dry soil', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'microbial_biomass_n': SlotDefinition(name='microbial_biomass_n', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.', alt_descriptions={}, title='microbial biomass nitrogen', deprecated=None, todos=[], notes=[], comments=['If you provide this, correction factors used for conversion to the final units and method are required'], examples=[Example(value='0.05 ug N/g dry soil', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate_nitrogen': SlotDefinition(name='nitrate_nitrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mg/kg', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate nitrogen in the sample', alt_descriptions={}, title='nitrate_nitrogen', deprecated=None, todos=[], notes=[], comments=['often below some specified limit of detection'], examples=[Example(value='0.29 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate_nitrogen', 'NO3-N'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1006, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite_nitrogen': SlotDefinition(name='nitrite_nitrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mg/kg', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite nitrogen in the sample', alt_descriptions={}, title='nitrite_nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.2 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite_nitrogen', 'NO2-N'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1007, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'non_microb_biomass': SlotDefinition(name='non_microb_biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ;', alt_descriptions={}, title='non-microbial biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='insect 0.23 ug; plant 1g', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:biomass|microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'non_microb_biomass_method': SlotDefinition(name='non_microb_biomass_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining biomass', alt_descriptions={}, title='non-microbial biomass method', deprecated=None, todos=[], notes=[], comments=['required if \"non-microbial biomass\" is provided'], examples=[Example(value='https://doi.org/10.1038/s41467-021-26181-3', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_matter': SlotDefinition(name='org_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic matter', alt_descriptions={}, title='organic matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.75 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000204', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro': SlotDefinition(name='org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic nitrogen', alt_descriptions={}, title='organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000205', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro_method': SlotDefinition(name='org_nitro_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Method used for obtaining organic nitrogen', alt_descriptions={}, title='organic nitrogen method', deprecated=None, todos=[], notes=[], comments=['required if \"org_nitro\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(85)90144-0', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:org_nitro|tot_nitro_cont_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'other_treatment': SlotDefinition(name='other_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Other treatments applied to your samples that are not applicable to the provided fields', alt_descriptions={}, title='other treatments', deprecated=None, todos=[], notes=[], comments=['This is an open text field to provide any treatments that cannot be captured in the provided slots.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:additional_info'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'prev_land_use_meth': SlotDefinition(name='prev_land_use_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining previous land use and dates', alt_descriptions={}, title='history/previous land use method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['history/previous land use method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000316', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'previous_land_use': SlotDefinition(name='previous_land_use', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='land use name;date', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Previous land use and dates', alt_descriptions={}, title='history/previous land use', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['history/previous land use'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000315', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+;([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'profile_position': SlotDefinition(name='profile_position', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas', alt_descriptions={}, title='profile position', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='summit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['profile position'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=28, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001084', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='profile_position_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity_meth': SlotDefinition(name='salinity_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining salinity', alt_descriptions={}, title='salinity method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='https://doi.org/10.1007/978-1-61779-986-0_28', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=55, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000341', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'season_precpt': SlotDefinition(name='season_precpt', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps.', alt_descriptions={}, title='average seasonal precipitation', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'check validation & examples. always mm? so value only? Or value + unit', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'check validation & examples. always mm? so value only? Or value + unit'], notes=['mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average', 'mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average'], comments=['Seasons are defined as spring (March, April, May), summer (June, July, August), autumn (September, October, November) and winter (December, January, February).'], examples=[Example(value='0.4 inch', description=None, object=None), Example(value='10.16 mm', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=29, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000645', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'season_temp': SlotDefinition(name='season_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Mean seasonal temperature', alt_descriptions={}, title='mean seasonal temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='18 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean seasonal temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000643', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sieving': SlotDefinition(name='sieving', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Collection design of pooled samples and/or sieve size and amount of sample sieved', alt_descriptions={}, title='composite design/sieving', deprecated=None, todos=['check validation and examples', 'check validation and examples'], notes=[], comments=['Describe how samples were composited or sieved.', \"Use 'sample link' to indicate which samples were combined.\"], examples=[Example(value='combined 2 cores', description=None, object=None), Example(value='4mm sieved', description=None, object=None), Example(value='4 mm sieved and homogenized', description=None, object=None), Example(value='50 g', description=None, object=None), Example(value='5 cores', description=None, object=None), Example(value='2 mm sieved', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{{text}|{float} {unit}};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000322', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac_low': SlotDefinition(name='size_frac_low', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrometer', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample', alt_descriptions={}, title='size-fraction lower threshold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size-fraction lower threshold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000735', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac_up': SlotDefinition(name='size_frac_up', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrometer', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample', alt_descriptions={}, title='size-fraction upper threshold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='20 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size-fraction upper threshold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000736', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'slope_aspect': SlotDefinition(name='slope_aspect', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees). - This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration.', alt_descriptions={}, title='slope aspect', deprecated=None, todos=['This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot'], notes=[], comments=['Aspect is the orientation of slope, measured clockwise in degrees from 0 to 360, where 0 is north-facing, 90 is east-facing, 180 is south-facing, and 270 is west-facing.'], examples=[Example(value='35', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000647', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'slope_gradient': SlotDefinition(name='slope_gradient', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer\", alt_descriptions={}, title='slope gradient', deprecated=None, todos=['Slope is a percent. How does the validation work? Check to correct examples', 'Slope is a percent. How does the validation work? Check to correct examples'], notes=[], comments=[], examples=[Example(value='10%', description=None, object=None), Example(value='10 %', description=None, object=None), Example(value='0.1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=31, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000646', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soil_horizon': SlotDefinition(name='soil_horizon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath', alt_descriptions={}, title='soil horizon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='A horizon', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=32, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001082', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='soil_horizon_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soil_text_measure': SlotDefinition(name='soil_text_measure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional.', alt_descriptions={}, title='soil texture measurement', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil texture measurement'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000335', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soil_texture_meth': SlotDefinition(name='soil_texture_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining soil texture', alt_descriptions={}, title='soil texture method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil texture method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=34, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000336', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soil_type': SlotDefinition(name='soil_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='ENVO_00001998', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes.', alt_descriptions={}, title='soil type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='plinthosol [ENVO:00002250]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=35, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000332', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soil_type_meth': SlotDefinition(name='soil_type_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining soil series name or other lower-level classification', alt_descriptions={}, title='soil type method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil type method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=36, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000334', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='SpecificEcosystemEnum', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'start_date_inc': SlotDefinition(name='start_date_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Date the incubation was started. Only relevant for incubation samples.', alt_descriptions={}, title='incubation start date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only'], comments=['Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable.'], examples=[Example(value='2021-04-15, 2021-04 and 2021 are all acceptable.', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'start_time_inc': SlotDefinition(name='start_time_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Time the incubation was started. Only relevant for incubation samples.', alt_descriptions={}, title='incubation start time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'store_cond': SlotDefinition(name='store_cond', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='storage condition type;duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Explain how the soil sample is stored (fresh/frozen/other).', alt_descriptions={}, title='storage conditions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-20 degree Celsius freezer;P2Y10D', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['storage conditions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000327', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='StoreCondEnum', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tillage': SlotDefinition(name='tillage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Note method(s) used for tilling', alt_descriptions={}, title='history/tillage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='chisel', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['history/tillage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001081', multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='tillage_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_carb': SlotDefinition(name='tot_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total carbon content', alt_descriptions={}, title='total carbon', deprecated=None, todos=['is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\", 'is this inorganic and organic? both? could use some clarification.', \"ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format\"], notes=[], comments=[], examples=[Example(value='1 ug/L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000525', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro_cont_meth': SlotDefinition(name='tot_nitro_cont_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining the total nitrogen', alt_descriptions={}, title='total nitrogen content method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='https://doi.org/10.2134/agronmonogr9.2.c32', description=None, object=None), Example(value='https://acsess.onlinelibrary.wiley.com/doi/full/10.2136/sssaj2009.0389?casa_token=bm0pYIUdNMgAAAAA%3AOWVRR0STHaOe-afTcTdxn5m1hM8n2ltM0wY-b1iYpYdD9dhwppk5j3LvC2IO5yhOIvyLVeQz4NZRCZo', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=49, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000338', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro_content': SlotDefinition(name='tot_nitro_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Total nitrogen content of the sample', alt_descriptions={}, title='total nitrogen content', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=48, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000530', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_org_c_meth': SlotDefinition(name='tot_org_c_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining total organic carbon', alt_descriptions={}, title='total organic carbon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='https://doi.org/10.1080/07352680902776556', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=51, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000337', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_org_carb': SlotDefinition(name='tot_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content', alt_descriptions={}, title='total organic carbon', deprecated=None, todos=['check description. How are they different?', 'check description. How are they different?'], notes=[], comments=[], examples=[Example(value='5 mg N/ L', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=50, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000533', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_phosp': SlotDefinition(name='tot_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus', alt_descriptions={}, title='total phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.03 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=52, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000117', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_cont_soil_meth': SlotDefinition(name='water_cont_soil_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining the water content of soil', alt_descriptions={}, title='water content method', deprecated=None, todos=['Why is it soil water content method in the name but not the title? Is this slot used in other samples?', 'Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).', 'Should this be multi valued? How to we manage and validate this?', 'Why is it soil water content method in the name but not the title? Is this slot used in other samples?', 'Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few).', 'Should this be multi valued? How to we manage and validate this?'], notes=[], comments=['Required if providing water content'], examples=[Example(value='J. Nat. Prod. Plant Resour., 2012, 2 (4):500-503', description=None, object=None), Example(value='https://dec.alaska.gov/applications/spar/webcalc/definitions.htm', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=40, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000323', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_content': SlotDefinition(name='water_content', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='string', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per gram or cubic centimeter per cubic centimeter', extensions={}, annotations={})}, description='Water content measurement', alt_descriptions={}, title='water content', deprecated=None, todos=['value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?', 'value in preferred unit is too limiting. need to change this', 'check and correct validation so examples are accepted', 'This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot', 'how to manage multiple water content methods?'], notes=[], comments=[], examples=[Example(value='75%', description=None, object=None), Example(value='75 %', description=None, object=None), Example(value='0.75 g water/g dry soil', description=None, object=None), Example(value='75% water holding capacity', description=None, object=None), Example(value='1.1 g fresh weight/ dry weight', description=None, object=None), Example(value='10% water filled pore space', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float or pct} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000185', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?%? \\\\S.+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'watering_regm': SlotDefinition(name='watering_regm', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens', alt_descriptions={}, title='watering regimen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M', description=None, object=None), Example(value='75% water holding capacity; constant', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000591', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'zinc': SlotDefinition(name='zinc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mg/kg (ppm)', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of zinc in the sample', alt_descriptions={}, title='zinc', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 mg/kg', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://www.ornl.gov/content/bio-scales-0'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['zinc'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+.*\\\\S+;(qPCR|ATP|MPN|other)\\\\|)*(\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+.*\\\\S+;(qPCR|ATP|MPN|other))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:SoilInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'WastewaterSludgeInterface': ClassDefinition(name='WastewaterSludgeInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WastewaterSludgeInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='wastewater_sludge dh_interface', alt_descriptions={}, title='Wastewater Sludge', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alkalinity', 'biochem_oxygen_dem', 'chem_administration', 'chem_oxygen_dem', 'collection_date', 'depth', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'efficiency_percent', 'elev', 'emulsions', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'gaseous_substances', 'geo_loc_name', 'horizon_meth', 'indust_eff_percent', 'inorg_particles', 'lat_lon', 'misc_param', 'nitrate', 'org_particles', 'organism_count', 'oxy_stat_samp', 'perturbation', 'ph', 'ph_meth', 'phosphate', 'pre_treatment', 'primary_treatment', 'reactor_type', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'WastewaterSludgeInterface_sample_link', 'secondary_treatment', 'sewage_type', 'size_frac', 'sludge_retent_time', 'sodium', 'soluble_inorg_mat', 'soluble_org_mat', 'specific_ecosystem', 'suspend_solids', 'temp', 'tertiary_treatment', 'tot_nitro', 'tot_phosphate', 'wastewater_type', 'WastewaterSludgeInterface_alkalinity', 'WastewaterSludgeInterface_biochem_oxygen_dem', 'WastewaterSludgeInterface_chem_administration', 'WastewaterSludgeInterface_chem_oxygen_dem', 'WastewaterSludgeInterface_collection_date', 'WastewaterSludgeInterface_depth', 'WastewaterSludgeInterface_ecosystem', 'WastewaterSludgeInterface_ecosystem_category', 'WastewaterSludgeInterface_ecosystem_subtype', 'WastewaterSludgeInterface_ecosystem_type', 'WastewaterSludgeInterface_efficiency_percent', 'WastewaterSludgeInterface_elev', 'WastewaterSludgeInterface_emulsions', 'WastewaterSludgeInterface_env_broad_scale', 'WastewaterSludgeInterface_env_local_scale', 'WastewaterSludgeInterface_env_medium', 'WastewaterSludgeInterface_env_package', 'WastewaterSludgeInterface_experimental_factor', 'WastewaterSludgeInterface_gaseous_substances', 'WastewaterSludgeInterface_geo_loc_name', 'WastewaterSludgeInterface_horizon_meth', 'WastewaterSludgeInterface_indust_eff_percent', 'WastewaterSludgeInterface_inorg_particles', 'WastewaterSludgeInterface_lat_lon', 'WastewaterSludgeInterface_misc_param', 'WastewaterSludgeInterface_nitrate', 'WastewaterSludgeInterface_org_particles', 'WastewaterSludgeInterface_organism_count', 'WastewaterSludgeInterface_oxy_stat_samp', 'WastewaterSludgeInterface_perturbation', 'WastewaterSludgeInterface_ph', 'WastewaterSludgeInterface_ph_meth', 'WastewaterSludgeInterface_phosphate', 'WastewaterSludgeInterface_pre_treatment', 'WastewaterSludgeInterface_primary_treatment', 'WastewaterSludgeInterface_reactor_type', 'WastewaterSludgeInterface_salinity', 'WastewaterSludgeInterface_samp_collec_device', 'WastewaterSludgeInterface_samp_collec_method', 'WastewaterSludgeInterface_samp_mat_process', 'WastewaterSludgeInterface_samp_size', 'WastewaterSludgeInterface_samp_store_dur', 'WastewaterSludgeInterface_samp_store_loc', 'WastewaterSludgeInterface_samp_store_temp', 'WastewaterSludgeInterface_secondary_treatment', 'WastewaterSludgeInterface_sewage_type', 'WastewaterSludgeInterface_size_frac', 'WastewaterSludgeInterface_sludge_retent_time', 'WastewaterSludgeInterface_sodium', 'WastewaterSludgeInterface_soluble_inorg_mat', 'WastewaterSludgeInterface_soluble_org_mat', 'WastewaterSludgeInterface_specific_ecosystem', 'WastewaterSludgeInterface_suspend_solids', 'WastewaterSludgeInterface_temp', 'WastewaterSludgeInterface_tertiary_treatment', 'WastewaterSludgeInterface_tot_nitro', 'WastewaterSludgeInterface_tot_phosphate', 'WastewaterSludgeInterface_wastewater_type', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biochem_oxygen_dem': SlotDefinition(name='biochem_oxygen_dem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period', alt_descriptions={}, title='biochemical oxygen demand', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biochemical oxygen demand'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=296, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000653', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_oxygen_dem': SlotDefinition(name='chem_oxygen_dem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite', alt_descriptions={}, title='chemical oxygen demand', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical oxygen demand'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=301, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000656', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.'], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemCategoryEnum range?'], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemSubtypeEnum range?'], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or EcosystemTypeEnum range?'], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'efficiency_percent': SlotDefinition(name='efficiency_percent', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Percentage of volatile solids removed from the anaerobic digestor', alt_descriptions={}, title='efficiency percent', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['efficiency percent'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=307, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000657', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='225', description=None, object=None), Example(value='0', description=None, object=None), Example(value='1250', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'emulsions': SlotDefinition(name='emulsions', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='emulsion name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types', alt_descriptions={}, title='emulsions', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['emulsions'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=308, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000660', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO's biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html\", alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='canopy [ENVO:00000047]', description=None, object=None), Example(value='herb and fern layer [ENVO:01000337]', description=None, object=None), Example(value='litter layer [ENVO:01000338]', description=None, object=None), Example(value='understory [01000335]', description=None, object=None), Example(value='shrub layer [ENVO:01000336]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=['range changed to enumeration late in makefile, so this is modified (but \"sample ID\" anyway)'], comments=[], examples=[Example(value='soil [ENVO:00001998]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:EFO_0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'gaseous_substances': SlotDefinition(name='gaseous_substances', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='gaseous substance name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances', alt_descriptions={}, title='gaseous substances', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['gaseous substances'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=311, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000661', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}: {text}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'indust_eff_percent': SlotDefinition(name='indust_eff_percent', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Percentage of industrial effluents received by wastewater treatment plant', alt_descriptions={}, title='industrial effluent percent', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['industrial effluent percent'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=332, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000662', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'inorg_particles': SlotDefinition(name='inorg_particles', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='inorganic particle name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles', alt_descriptions={}, title='inorganic particles', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['inorganic particles'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=333, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000664', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?', \"This is currently a required field but it's not clear if this should be required for human hosts\"], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{lat lon}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?([1-8]?\\\\d(\\\\.\\\\d+)?|90(\\\\.0+)?)\\\\s[-+]?(180(\\\\.0+)?|((1[0-7]\\\\d)|([1-9]?\\\\d))(\\\\.\\\\d+)?)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_particles': SlotDefinition(name='org_particles', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='particle name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc.', alt_descriptions={}, title='organic particles', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic particles'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=338, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000665', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*\\\\|)*([-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=['Use modified term'], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}', singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=0, maximum_value=14, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pre_treatment': SlotDefinition(name='pre_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='pre-treatment type', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The process of pre-treatment removes materials that can be easily collected from the raw wastewater', alt_descriptions={}, title='pre-treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pre-treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=342, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000348', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'primary_treatment': SlotDefinition(name='primary_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='primary treatment type', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed', alt_descriptions={}, title='primary treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['primary treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=343, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000349', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'reactor_type': SlotDefinition(name='reactor_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='reactor type name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage', alt_descriptions={}, title='reactor type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['reactor type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=346, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000350', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=['Report dimensions and details when applicable'], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=['This can be a citation or description'], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=['This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis.'], examples=[Example(value='5 grams', description=None, object=None), Example(value='10 mL', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which the sample was stored (degrees are assumed)', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'secondary_treatment': SlotDefinition(name='secondary_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='secondary treatment type', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The process for substantially degrading the biological content of the sewage', alt_descriptions={}, title='secondary treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['secondary treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=360, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000351', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sewage_type': SlotDefinition(name='sewage_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='sewage type name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Type of wastewater treatment plant as municipial or industrial', alt_descriptions={}, title='sewage type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sewage type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=361, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000215', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sludge_retent_time': SlotDefinition(name='sludge_retent_time', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='hours', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The time activated sludge remains in reactor', alt_descriptions={}, title='sludge retention time', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sludge retention time'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=362, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000669', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soluble_inorg_mat': SlotDefinition(name='soluble_inorg_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='soluble inorganic material name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, mole per liter, gram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc.', alt_descriptions={}, title='soluble inorganic material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soluble inorganic material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=364, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000672', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soluble_org_mat': SlotDefinition(name='soluble_org_mat', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='soluble organic material name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, mole per liter, gram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc.', alt_descriptions={}, title='soluble organic material', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soluble organic material'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=365, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000673', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string or SpecificEcosystemEnum range?'], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'suspend_solids': SlotDefinition(name='suspend_solids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='suspended solid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram, microgram, milligram per liter, mole per liter, gram per liter, part per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances', alt_descriptions={}, title='suspended solids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['suspended solids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=372, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000150', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tertiary_treatment': SlotDefinition(name='tertiary_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='tertiary treatment type', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment', alt_descriptions={}, title='tertiary treatment', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['tertiary treatment'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=374, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000352', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro': SlotDefinition(name='tot_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen', alt_descriptions={}, title='total nitrogen concentration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total nitrogen concentration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=377, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000102', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_phosphate': SlotDefinition(name='tot_phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total amount or concentration of phosphate', alt_descriptions={}, title='total phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=378, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000689', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'wastewater_type': SlotDefinition(name='wastewater_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='wastewater type name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The origin of wastewater such as human waste, rainfall, storm drains, etc.', alt_descriptions={}, title='wastewater type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['wastewater type'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=385, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000353', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:WastewaterSludgeInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'WaterInterface': ClassDefinition(name='WaterInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WaterInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='water dh_interface', alt_descriptions={}, title='Water', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a='DhInterface', abstract=None, mixin=None, mixins=['DhMultiviewCommonColumnsMixin', 'SampIdNewTermsMixin'], apply_to=[], values_from=[], string_serialization=None, slots=['alkalinity', 'alkalinity_method', 'alkyl_diethers', 'aminopept_act', 'ammonium', 'atmospheric_data', 'bac_prod', 'bac_resp', 'bacteria_carb_prod', 'biomass', 'bishomohopanol', 'bromide', 'calcium', 'carb_nitro_ratio', 'chem_administration', 'chloride', 'chlorophyll', 'collection_date', 'conduc', 'density', 'depth', 'diether_lipids', 'diss_carb_dioxide', 'diss_hydrogen', 'diss_inorg_carb', 'diss_inorg_nitro', 'diss_inorg_phosp', 'diss_org_carb', 'diss_org_nitro', 'diss_oxygen', 'down_par', 'ecosystem', 'ecosystem_category', 'ecosystem_subtype', 'ecosystem_type', 'elev', 'env_broad_scale', 'env_local_scale', 'env_medium', 'env_package', 'experimental_factor', 'fluor', 'geo_loc_name', 'glucosidase_act', 'horizon_meth', 'lat_lon', 'light_intensity', 'mean_frict_vel', 'mean_peak_frict_vel', 'misc_param', 'n_alkanes', 'nitrate', 'nitrite', 'nitro', 'org_carb', 'org_matter', 'org_nitro', 'organism_count', 'oxy_stat_samp', 'part_org_carb', 'part_org_nitro', 'perturbation', 'petroleum_hydrocarb', 'ph', 'ph_meth', 'phaeopigments', 'phosphate', 'phosplipid_fatt_acid', 'photon_flux', 'potassium', 'pressure', 'primary_prod', 'redox_potential', 'salinity', 'samp_collec_device', 'samp_collec_method', 'samp_mat_process', 'samp_size', 'samp_store_dur', 'samp_store_loc', 'samp_store_temp', 'WaterInterface_sample_link', 'silicate', 'size_frac', 'size_frac_low', 'size_frac_up', 'sodium', 'soluble_react_phosp', 'specific_ecosystem', 'sulfate', 'sulfide', 'suspend_part_matter', 'temp', 'tidal_stage', 'tot_depth_water_col', 'tot_diss_nitro', 'tot_inorg_nitro', 'tot_nitro', 'tot_part_carb', 'turbidity', 'water_current', 'WaterInterface_alkalinity', 'WaterInterface_alkalinity_method', 'WaterInterface_alkyl_diethers', 'WaterInterface_aminopept_act', 'WaterInterface_ammonium', 'WaterInterface_atmospheric_data', 'WaterInterface_bac_prod', 'WaterInterface_bac_resp', 'WaterInterface_bacteria_carb_prod', 'WaterInterface_biomass', 'WaterInterface_bishomohopanol', 'WaterInterface_bromide', 'WaterInterface_calcium', 'WaterInterface_carb_nitro_ratio', 'WaterInterface_chem_administration', 'WaterInterface_chloride', 'WaterInterface_chlorophyll', 'WaterInterface_collection_date', 'WaterInterface_conduc', 'WaterInterface_density', 'WaterInterface_depth', 'WaterInterface_diether_lipids', 'WaterInterface_diss_carb_dioxide', 'WaterInterface_diss_hydrogen', 'WaterInterface_diss_inorg_carb', 'WaterInterface_diss_inorg_nitro', 'WaterInterface_diss_inorg_phosp', 'WaterInterface_diss_org_carb', 'WaterInterface_diss_org_nitro', 'WaterInterface_diss_oxygen', 'WaterInterface_down_par', 'WaterInterface_ecosystem', 'WaterInterface_ecosystem_category', 'WaterInterface_ecosystem_subtype', 'WaterInterface_ecosystem_type', 'WaterInterface_elev', 'WaterInterface_env_broad_scale', 'WaterInterface_env_local_scale', 'WaterInterface_env_medium', 'WaterInterface_env_package', 'WaterInterface_experimental_factor', 'WaterInterface_fluor', 'WaterInterface_geo_loc_name', 'WaterInterface_glucosidase_act', 'WaterInterface_horizon_meth', 'WaterInterface_lat_lon', 'WaterInterface_light_intensity', 'WaterInterface_mean_frict_vel', 'WaterInterface_mean_peak_frict_vel', 'WaterInterface_misc_param', 'WaterInterface_n_alkanes', 'WaterInterface_nitrate', 'WaterInterface_nitrite', 'WaterInterface_nitro', 'WaterInterface_org_carb', 'WaterInterface_org_matter', 'WaterInterface_org_nitro', 'WaterInterface_organism_count', 'WaterInterface_oxy_stat_samp', 'WaterInterface_part_org_carb', 'WaterInterface_part_org_nitro', 'WaterInterface_perturbation', 'WaterInterface_petroleum_hydrocarb', 'WaterInterface_ph', 'WaterInterface_ph_meth', 'WaterInterface_phaeopigments', 'WaterInterface_phosphate', 'WaterInterface_phosplipid_fatt_acid', 'WaterInterface_photon_flux', 'WaterInterface_potassium', 'WaterInterface_pressure', 'WaterInterface_primary_prod', 'WaterInterface_redox_potential', 'WaterInterface_salinity', 'WaterInterface_samp_collec_device', 'WaterInterface_samp_collec_method', 'WaterInterface_samp_mat_process', 'WaterInterface_samp_size', 'WaterInterface_samp_store_dur', 'WaterInterface_samp_store_loc', 'WaterInterface_samp_store_temp', 'WaterInterface_silicate', 'WaterInterface_size_frac', 'WaterInterface_size_frac_low', 'WaterInterface_size_frac_up', 'WaterInterface_sodium', 'WaterInterface_soluble_react_phosp', 'WaterInterface_specific_ecosystem', 'WaterInterface_sulfate', 'WaterInterface_sulfide', 'WaterInterface_suspend_part_matter', 'WaterInterface_temp', 'WaterInterface_tidal_stage', 'WaterInterface_tot_depth_water_col', 'WaterInterface_tot_diss_nitro', 'WaterInterface_tot_inorg_nitro', 'WaterInterface_tot_nitro', 'WaterInterface_tot_part_carb', 'WaterInterface_turbidity', 'WaterInterface_water_current', 'DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id'], slot_usage={'alkalinity': SlotDefinition(name='alkalinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliequivalent per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate', alt_descriptions={}, title='alkalinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000421', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkalinity_method': SlotDefinition(name='alkalinity_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='description of method', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Method used for alkalinity measurement', alt_descriptions={}, title='alkalinity method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='titration', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkalinity method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=218, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000298', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'alkyl_diethers': SlotDefinition(name='alkyl_diethers', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of alkyl diethers', alt_descriptions={}, title='alkyl diethers', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.005 mole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['alkyl diethers'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000490', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'aminopept_act': SlotDefinition(name='aminopept_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of aminopeptidase activity', alt_descriptions={}, title='aminopeptidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.269 mole per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['aminopeptidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000172', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ammonium': SlotDefinition(name='ammonium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of ammonium in the sample', alt_descriptions={}, title='ammonium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['ammonium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000427', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'atmospheric_data': SlotDefinition(name='atmospheric_data', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='atmospheric data name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Measurement of atmospheric data; can include multiple data', alt_descriptions={}, title='atmospheric data', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='wind speed;9 knots', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['atmospheric data'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=219, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0001097', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bac_prod': SlotDefinition(name='bac_prod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter per day', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Bacterial production in the water column measured by isotope uptake', alt_descriptions={}, title='bacterial production', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per cubic meter per day', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bacterial production'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=220, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000683', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bac_resp': SlotDefinition(name='bac_resp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter per day, micromole oxygen per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of bacterial respiration in the water column', alt_descriptions={}, title='bacterial respiration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='300 micromole oxygen per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bacterial respiration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=221, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000684', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bacteria_carb_prod': SlotDefinition(name='bacteria_carb_prod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of bacterial carbon production', alt_descriptions={}, title='bacterial carbon production', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.53 microgram per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bacterial carbon production'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000173', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'biomass': SlotDefinition(name='biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='biomass type;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='ton, kilogram, gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements', alt_descriptions={}, title='biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total;20 gram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['biomass'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000174', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bishomohopanol': SlotDefinition(name='bishomohopanol', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, microgram per gram', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bishomohopanol', alt_descriptions={}, title='bishomohopanol', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='14 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bishomohopanol'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000175', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'bromide': SlotDefinition(name='bromide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of bromide', alt_descriptions={}, title='bromide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 parts per million', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['bromide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000176', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'calcium': SlotDefinition(name='calcium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, micromole per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of calcium in the sample', alt_descriptions={}, title='calcium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['calcium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000432', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'carb_nitro_ratio': SlotDefinition(name='carb_nitro_ratio', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ratio of amount or concentrations of carbon to nitrogen', alt_descriptions={}, title='carbon/nitrogen ratio', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.417361111', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['carbon/nitrogen ratio'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000310', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chem_administration': SlotDefinition(name='chem_administration', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='CHEBI;timestamp', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi', alt_descriptions={}, title='chemical administration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22', description=None, object=None), Example(value='agar [CHEBI:2509];2018-05', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chemical administration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]};{timestamp}', singular_name=None, domain=None, slot_uri='MIXS:0000751', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\];([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chloride': SlotDefinition(name='chloride', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chloride in the sample', alt_descriptions={}, title='chloride', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5000 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chloride'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000429', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'chlorophyll': SlotDefinition(name='chlorophyll', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter, microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of chlorophyll', alt_descriptions={}, title='chlorophyll', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['chlorophyll'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000177', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_date': SlotDefinition(name='collection_date', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='date and time', extensions={}, annotations={})}, description='The date of sampling', alt_descriptions={}, title='collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only', 'Use modified term (amended definition)'], comments=[], examples=[Example(value='2021-04-15', description=None, object=None), Example(value='2021-04', description=None, object=None), Example(value='2021', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['collection date'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri='MIXS:0000011', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'conduc': SlotDefinition(name='conduc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milliSiemens per centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Electrical conductivity of water', alt_descriptions={}, title='conductivity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10 milliSiemens per centimeter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['conductivity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=222, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000692', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'density': SlotDefinition(name='density', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='gram per cubic meter, gram per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Density of the sample, which is its mass per unit volume (aka volumetric mass density)', alt_descriptions={}, title='density', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1000 kilogram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['density'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000435', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'depth': SlotDefinition(name='depth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={})}, description='The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples.', alt_descriptions={}, title='depth, meters', deprecated=None, todos=[], notes=['Use modified term'], comments=['All depths must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='0 - 0.1', description=None, object=None), Example(value='1', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['depth'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}|{float}-{float}', singular_name=None, domain=None, slot_uri='MIXS:0000018', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?(\\\\s*-\\\\s*[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diether_lipids': SlotDefinition(name='diether_lipids', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='diether lipid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='nanogram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of diether lipids; can include multiple types of diether lipids', alt_descriptions={}, title='diether lipids', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 nanogram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['diether lipids'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000178', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_carb_dioxide': SlotDefinition(name='diss_carb_dioxide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample', alt_descriptions={}, title='dissolved carbon dioxide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved carbon dioxide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000436', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_hydrogen': SlotDefinition(name='diss_hydrogen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved hydrogen', alt_descriptions={}, title='dissolved hydrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved hydrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000179', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_carb': SlotDefinition(name='diss_inorg_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter', alt_descriptions={}, title='dissolved inorganic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2059 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000434', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_nitro': SlotDefinition(name='diss_inorg_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved inorganic nitrogen', alt_descriptions={}, title='dissolved inorganic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='761 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=223, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000698', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_inorg_phosp': SlotDefinition(name='diss_inorg_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved inorganic phosphorus in the sample', alt_descriptions={}, title='dissolved inorganic phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='56.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved inorganic phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=224, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_carb': SlotDefinition(name='diss_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid', alt_descriptions={}, title='dissolved organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='197 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=17, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000433', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_org_nitro': SlotDefinition(name='diss_org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2', alt_descriptions={}, title='dissolved organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000162', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'diss_oxygen': SlotDefinition(name='diss_oxygen', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per kilogram, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of dissolved oxygen', alt_descriptions={}, title='dissolved oxygen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='175 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['dissolved oxygen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000119', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'down_par': SlotDefinition(name='down_par', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microEinstein per square meter per second, microEinstein per square centimeter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Visible waveband radiance and irradiance measurements in the water column', alt_descriptions={}, title='downward PAR', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='28.71 microEinstein per square meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['downward PAR'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=225, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000703', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem': SlotDefinition(name='ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_category': SlotDefinition(name='ecosystem_category', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_subtype': SlotDefinition(name='ecosystem_subtype', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ecosystem_type': SlotDefinition(name='ecosystem_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'elev': SlotDefinition(name='elev', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit.\", alt_descriptions={}, title='elevation, meters', deprecated=None, todos=[], notes=[], comments=['All elevations must be reported in meters. Provide the numerical portion only.'], examples=[Example(value='100', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000093', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='float', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_broad_scale': SlotDefinition(name='env_broad_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS', alt_descriptions={}, title='broad-scale environmental context', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000012', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_local_scale': SlotDefinition(name='env_local_scale', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.', alt_descriptions={}, title='local environmental context', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000013', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_medium': SlotDefinition(name='env_medium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).\", alt_descriptions={}, title='environmental medium', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}', singular_name=None, domain=None, slot_uri='MIXS:0000014', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'env_package': SlotDefinition(name='env_package', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select the MIxS enviromental package that best describes the environment from which your sample was collected.', alt_descriptions={}, title='environmental package', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='soil', description=None, object=None)], in_subset=['mixs extension'], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['environmental package'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='attribute', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor': SlotDefinition(name='experimental_factor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text or EFO and/or OBI', extensions={}, annotations={})}, description='Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI', alt_descriptions={}, title='experimental factor', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='time series design [EFO:0001779]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['experimental factor'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000008', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'fluor': SlotDefinition(name='fluor', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram chlorophyll a per cubic meter, volts', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Raw or converted fluorescence of water', alt_descriptions={}, title='fluorescence', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 volts', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['fluorescence'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=226, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000704', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'geo_loc_name': SlotDefinition(name='geo_loc_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='country or sea name (INSDC or GAZ): region(GAZ), specific location name', extensions={}, annotations={})}, description='The geographical origin of the sample as defined by the country or sea name followed by specific region name.', alt_descriptions={}, title='geographic location (country and/or sea,region)', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='USA: Maryland, Bethesda', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['geographic location (country and/or sea,region)'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{term}: {term}, {text}', singular_name=None, domain=None, slot_uri='MIXS:0000010', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'glucosidase_act': SlotDefinition(name='glucosidase_act', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mol per liter per hour', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of glucosidase activity', alt_descriptions={}, title='glucosidase activity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 mol per liter per hour', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['glucosidase activity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=20, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000137', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'horizon_meth': SlotDefinition(name='horizon_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI or url', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Reference or method used in determining the horizon', alt_descriptions={}, title='soil horizon method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soil horizon method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=19, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0000321', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'lat_lon': SlotDefinition(name='lat_lon', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"This is currently a required field but it's not clear if this should be required for human hosts\", alt_descriptions={}, title='geographic location (latitude and longitude)', deprecated=None, todos=[], notes=['required where?'], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {float}', singular_name=None, domain=None, slot_uri='MIXS:0000009', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'light_intensity': SlotDefinition(name='light_intensity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='lux', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of light intensity', alt_descriptions={}, title='light intensity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 lux', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['light intensity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=227, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000706', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_frict_vel': SlotDefinition(name='mean_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean friction velocity', alt_descriptions={}, title='mean friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=22, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000498', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'mean_peak_frict_vel': SlotDefinition(name='mean_peak_frict_vel', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter per second', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of mean peak friction velocity', alt_descriptions={}, title='mean peak friction velocity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1 meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['mean peak friction velocity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000502', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'misc_param': SlotDefinition(name='misc_param', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='parameter name;measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Any other measurement performed or parameter collected, that is not listed here', alt_descriptions={}, title='miscellaneous parameter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Bicarbonate ion concentration;2075 micromole per kilogram', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['miscellaneous parameter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=23, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000752', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'n_alkanes': SlotDefinition(name='n_alkanes', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='n-alkane name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of n-alkanes; can include multiple n-alkanes', alt_descriptions={}, title='n-alkanes', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='n-hexadecane;100 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['n-alkanes'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000503', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrate': SlotDefinition(name='nitrate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrate in the sample', alt_descriptions={}, title='nitrate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='65 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=26, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000425', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitrite': SlotDefinition(name='nitrite', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrite in the sample', alt_descriptions={}, title='nitrite', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrite'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000426', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nitro': SlotDefinition(name='nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of nitrogen (total)', alt_descriptions={}, title='nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4.2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=28, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000504', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_carb': SlotDefinition(name='org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic carbon', alt_descriptions={}, title='organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.5 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=29, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000508', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_matter': SlotDefinition(name='org_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic matter', alt_descriptions={}, title='organic matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.75 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000204', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro': SlotDefinition(name='org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of organic nitrogen', alt_descriptions={}, title='organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='4 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000205', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'organism_count': SlotDefinition(name='organism_count', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='organism name;measurement value;enumeration', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)', alt_descriptions={}, title='organism count', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='total prokaryotes;3.5e7 cells per milliliter;qPCR', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['organism count'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=30, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000103', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^(\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+.*\\\\S+;(qPCR|ATP|MPN|other)\\\\|)*(\\\\S+.*\\\\S+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+.*\\\\S+;(qPCR|ATP|MPN|other))$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Oxygenation status of sample', alt_descriptions={}, title='oxygenation status of sample', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=25, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000753', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'part_org_carb': SlotDefinition(name='part_org_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of particulate organic carbon', alt_descriptions={}, title='particulate organic carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='1.92 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['particulate organic carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=31, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000515', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'part_org_nitro': SlotDefinition(name='part_org_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of particulate organic nitrogen', alt_descriptions={}, title='particulate organic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['particulate organic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=228, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000719', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'perturbation': SlotDefinition(name='perturbation', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='perturbation type name;perturbation interval and duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types', alt_descriptions={}, title='perturbation', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['perturbation'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=33, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{Rn/start_time/end_time/duration}', singular_name=None, domain=None, slot_uri='MIXS:0000754', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'petroleum_hydrocarb': SlotDefinition(name='petroleum_hydrocarb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of petroleum hydrocarbon', alt_descriptions={}, title='petroleum hydrocarbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['petroleum hydrocarbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=34, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000516', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph': SlotDefinition(name='ph', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid', alt_descriptions={}, title='pH', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='7.2', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pH'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=27, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0001001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='double', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ph_meth': SlotDefinition(name='ph_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining ph', alt_descriptions={}, title='pH method', deprecated=None, todos=[], notes=[], comments=['This can include a link to the instrument used or a citation for the method.'], examples=[Example(value='https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB', description=None, object=None), Example(value='https://doi.org/10.2136/sssabookser5.3.c16', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri='MIXS:0001106', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phaeopigments': SlotDefinition(name='phaeopigments', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phaeopigment name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phaeopigments; can include multiple phaeopigments', alt_descriptions={}, title='phaeopigments', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.5 milligram per cubic meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phaeopigments'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=35, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000180', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosphate': SlotDefinition(name='phosphate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of phosphate', alt_descriptions={}, title='phosphate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.7 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phosphate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=53, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000505', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'phosplipid_fatt_acid': SlotDefinition(name='phosplipid_fatt_acid', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='phospholipid fatty acid name;measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='mole per gram, mole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='m', extensions={}, annotations={})}, description='Concentration of phospholipid fatty acids; can include multiple values', alt_descriptions={}, title='phospholipid fatty acid', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2.98 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['phospholipid fatty acid'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=36, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000181', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+\\\\|)*([^;\\\\t\\\\r\\\\x0A]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A]+)$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'photon_flux': SlotDefinition(name='photon_flux', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='number of photons per second per unit area', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of photon flux', alt_descriptions={}, title='photon flux', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='3.926 micromole photons per second per square meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['photon flux'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=229, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000725', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'potassium': SlotDefinition(name='potassium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of potassium in the sample', alt_descriptions={}, title='potassium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='463 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['potassium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=38, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000430', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'pressure': SlotDefinition(name='pressure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='atmosphere', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Pressure to which the sample is subject to, in atmospheres', alt_descriptions={}, title='pressure', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 atmosphere', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['pressure'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=39, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000412', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'primary_prod': SlotDefinition(name='primary_prod', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per cubic meter per day, gram per square meter per day', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of primary production, generally measured as isotope uptake', alt_descriptions={}, title='primary production', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='100 milligram per cubic meter per day', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['primary production'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=230, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000728', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'redox_potential': SlotDefinition(name='redox_potential', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millivolt', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential', alt_descriptions={}, title='redox potential', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='300 millivolt', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['redox potential'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=40, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000182', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'salinity': SlotDefinition(name='salinity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='practical salinity unit, percentage', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater.', alt_descriptions={}, title='salinity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 practical salinity unit', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['salinity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=54, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000183', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_device': SlotDefinition(name='samp_collec_device', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='device name', extensions={}, annotations={})}, description='The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).', alt_descriptions={}, title='sample collection device', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection device'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0000002', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_collec_method': SlotDefinition(name='samp_collec_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='PMID,DOI,url , or text', extensions={}, annotations={})}, description='The method employed for collecting the sample.', alt_descriptions={}, title='sample collection method', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='swabbing', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample collection method'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}|{text}', singular_name=None, domain=None, slot_uri='MIXS:0001225', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_mat_process': SlotDefinition(name='samp_mat_process', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed.', alt_descriptions={}, title='sample material processing', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='filtering of seawater', description=None, object=None), Example(value='storing samples in ethanol', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample material processing'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=12, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000016', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_size': SlotDefinition(name='samp_size', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='millliter, gram, milligram, liter', extensions={}, annotations={})}, description='The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected.', alt_descriptions={}, title='amount or size of sample collected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['amount or size of sample collected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=18, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000001', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_dur': SlotDefinition(name='samp_store_dur', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='duration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Duration for which the sample was stored', alt_descriptions={}, title='sample storage duration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='P1Y6M', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage duration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=353, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{duration}', singular_name=None, domain=None, slot_uri='MIXS:0000116', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_loc': SlotDefinition(name='samp_store_loc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='location name', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Location at which sample was stored, usually name of a specific freezer/room', alt_descriptions={}, title='sample storage location', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='Freezer no:5', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage location'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=41, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0000755', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_store_temp': SlotDefinition(name='samp_store_temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Temperature at which sample was stored, e.g. -80 degree Celsius', alt_descriptions={}, title='sample storage temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='-80 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample storage temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000110', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sample_link': SlotDefinition(name='sample_link', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample.', alt_descriptions={}, title='sample linkage', deprecated=None, todos=[], notes=['also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and \"placeholder\" in slot_usage.keys():AttributeError: \\'list\\' object has no attribute \\'keys\\''], comments=['This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)'], examples=[Example(value='IGSN:DSJ0284', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'silicate': SlotDefinition(name='silicate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of silicate', alt_descriptions={}, title='silicate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.05 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['silicate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=43, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000184', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac': SlotDefinition(name='size_frac', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='filter size value range', extensions={}, annotations={})}, description='Filtering pore size used in sample preparation', alt_descriptions={}, title='size fraction selected', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0-0.22 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size fraction selected'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=285, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float}-{float} {unit}', singular_name=None, domain=None, slot_uri='MIXS:0000017', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac_low': SlotDefinition(name='size_frac_low', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrometer', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample', alt_descriptions={}, title='size-fraction lower threshold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.2 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size-fraction lower threshold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=10, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000735', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'size_frac_up': SlotDefinition(name='size_frac_up', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micrometer', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample', alt_descriptions={}, title='size-fraction upper threshold', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='20 micrometer', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['size-fraction upper threshold'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=11, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000736', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_modified_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sodium': SlotDefinition(name='sodium', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Sodium concentration in the sample', alt_descriptions={}, title='sodium', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sodium'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=363, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000428', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'soluble_react_phosp': SlotDefinition(name='soluble_react_phosp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of soluble reactive phosphorus', alt_descriptions={}, title='soluble reactive phosphorus', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.1 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['soluble reactive phosphorus'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=231, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000738', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'specific_ecosystem': SlotDefinition(name='specific_ecosystem', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['https://gold.jgi.doe.gov/help'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=13, is_a='gold_path_field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample', 'Study'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfate': SlotDefinition(name='sulfate', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfate in the sample', alt_descriptions={}, title='sulfate', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='5 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfate'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=44, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000423', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'sulfide': SlotDefinition(name='sulfide', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='micromole per liter, milligram per liter, parts per million', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of sulfide in the sample', alt_descriptions={}, title='sulfide', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='2 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sulfide'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=371, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000424', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'suspend_part_matter': SlotDefinition(name='suspend_part_matter', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Concentration of suspended particulate matter', alt_descriptions={}, title='suspended particulate matter', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.5 milligram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['suspended particulate matter'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=232, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000741', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'temp': SlotDefinition(name='temp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='degree Celsius', extensions={}, annotations={})}, description='Temperature of the sample at the time of sampling.', alt_descriptions={}, title='temperature', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='25 degree Celsius', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['temperature'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=37, is_a='environment field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000113', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tidal_stage': SlotDefinition(name='tidal_stage', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='enumeration', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Stage of tide', alt_descriptions={}, title='tidal stage', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='high tide', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['tidal stage'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=45, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000750', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='tidal_stage_enum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_depth_water_col': SlotDefinition(name='tot_depth_water_col', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='meter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of total depth of water column', alt_descriptions={}, title='total depth of water column', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='500 meter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total depth of water column'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=46, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000634', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_diss_nitro': SlotDefinition(name='tot_diss_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen', alt_descriptions={}, title='total dissolved nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='40 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total dissolved nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=233, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000744', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_inorg_nitro': SlotDefinition(name='tot_inorg_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total inorganic nitrogen content', alt_descriptions={}, title='total inorganic nitrogen', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='40 microgram per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total inorganic nitrogen'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=234, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000745', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_nitro': SlotDefinition(name='tot_nitro', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter, milligram per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen', alt_descriptions={}, title='total nitrogen concentration', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='50 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total nitrogen concentration'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=377, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000102', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'tot_part_carb': SlotDefinition(name='tot_part_carb', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='microgram per liter, micromole per liter', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Total particulate carbon content', alt_descriptions={}, title='total particulate carbon', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='35 micromole per liter', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['total particulate carbon'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=235, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000747', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'turbidity': SlotDefinition(name='turbidity', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='formazin turbidity unit, formazin nephelometric units', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measure of the amount of cloudiness or haziness in water caused by individual particles', alt_descriptions={}, title='turbidity', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='0.3 nephelometric turbidity units', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['turbidity'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=47, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000191', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'water_current': SlotDefinition(name='water_current', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='measurement value', extensions={}, annotations={}), 'preferred_unit': Annotation(tag='preferred_unit', value='cubic meter per second, knots', extensions={}, annotations={}), 'occurrence': Annotation(tag='occurrence', value='1', extensions={}, annotations={})}, description='Measurement of magnitude and direction of flow within a fluid', alt_descriptions={}, title='water current', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='10 cubic meter per second', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['water current'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=236, is_a='core field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri='MIXS:0000203', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_core_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+ +\\\\S.*$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:WaterInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'DhMultiviewCommonColumnsMixin': ClassDefinition(name='DhMultiviewCommonColumnsMixin', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DhMultiviewCommonColumnsMixin', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Mixin with DhMutliviewCommon Columns', alt_descriptions={}, title='Dh Mutliview Common Columns', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=True, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=['DhMultiviewCommonColumnsMixin_analysis_type', 'samp_name', 'source_mat_id', 'DhMultiviewCommonColumnsMixin_samp_name', 'DhMultiviewCommonColumnsMixin_source_mat_id', 'DhMultiviewCommonColumnsMixin_oxy_stat_samp'], slot_usage={'analysis_type': SlotDefinition(name='analysis_type', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Select all the data types associated or available for this biosample', alt_descriptions={}, title='analysis/data type', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='metagenomics; metabolomics; proteomics', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:investigation_type'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=True, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='analysis_type_enum', range_expression=None, enum_range=None, required=True, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'samp_name': SlotDefinition(name='samp_name', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={'expected_value': Annotation(tag='expected_value', value='text', extensions={}, annotations={})}, description='A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples.', alt_descriptions={}, title='sample name', deprecated=None, todos=[], notes=[], comments=['It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible.'], examples=[Example(value='Rock core CB1178(5-6) from NSW', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=['sample name'], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a='investigation field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri='MIXS:0001107', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=True, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=True, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'source_mat_id': SlotDefinition(name='source_mat_id', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A globally unique identifier assigned to the biological sample.', alt_descriptions={}, title='source material identifier', deprecated=None, todos=['Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.', 'Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID.'], notes=['The source material IS the Globally Unique ID'], comments=['Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).', 'Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/).'], examples=[Example(value='IGSN:AU1243', description=None, object=None), Example(value='UUID:24f1467a-40f4-11ed-b878-0242ac120002', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a='nucleic acid sequence source field', abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}:{text}', singular_name=None, domain=None, slot_uri='MIXS:0000026', multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='sample_id_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='[^\\\\:\\\\n\\\\r]+\\\\:[^\\\\:\\\\n\\\\r]+', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'oxy_stat_samp': SlotDefinition(name='oxy_stat_samp', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, singular_name=None, domain=None, slot_uri=None, multivalued=None, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner=None, domain_of=[], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group=None, is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='OxyStatSampEnum', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:DhMultiviewCommonColumnsMixin', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'SampIdNewTermsMixin': ClassDefinition(name='SampIdNewTermsMixin', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampIdNewTermsMixin', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Mixin with SampIdNew Terms', alt_descriptions={}, title='SampId New Terms', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=True, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=['sample_link'], slot_usage={}, attributes={}, class_uri='nmdc_sub_schema:SampIdNewTermsMixin', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'SoilMixsInspiredMixin': ClassDefinition(name='SoilMixsInspiredMixin', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SoilMixsInspiredMixin', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Mixin with SoilMixsInspired Terms', alt_descriptions={}, title='Soil MIxS Inspired Mixin', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=True, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=['SoilMixsInspiredMixin_collection_date_inc', 'SoilMixsInspiredMixin_collection_time', 'SoilMixsInspiredMixin_collection_time_inc', 'SoilMixsInspiredMixin_experimental_factor_other', 'SoilMixsInspiredMixin_filter_method', 'SoilMixsInspiredMixin_isotope_exposure', 'SoilMixsInspiredMixin_micro_biomass_c_meth', 'SoilMixsInspiredMixin_micro_biomass_n_meth', 'SoilMixsInspiredMixin_microbial_biomass_c', 'SoilMixsInspiredMixin_microbial_biomass_n', 'SoilMixsInspiredMixin_non_microb_biomass', 'SoilMixsInspiredMixin_non_microb_biomass_method', 'SoilMixsInspiredMixin_org_nitro_method', 'SoilMixsInspiredMixin_other_treatment', 'SoilMixsInspiredMixin_start_date_inc', 'SoilMixsInspiredMixin_start_time_inc', 'collection_date_inc', 'collection_time', 'collection_time_inc', 'experimental_factor_other', 'filter_method', 'isotope_exposure', 'micro_biomass_c_meth', 'micro_biomass_n_meth', 'microbial_biomass_c', 'microbial_biomass_n', 'non_microb_biomass', 'non_microb_biomass_method', 'org_nitro_method', 'other_treatment', 'start_date_inc', 'start_time_inc'], slot_usage={'collection_date_inc': SlotDefinition(name='collection_date_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Date the incubation was harvested/collected/ended. Only relevant for incubation samples.', alt_descriptions={}, title='incubation collection date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only'], comments=['Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable.'], examples=[Example(value='2021-04-15, 2021-04 and 2021 are all acceptable.', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=2, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_time': SlotDefinition(name='collection_time', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The time of sampling, either as an instance (single point) or interval.', alt_descriptions={}, title='collection time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'collection_time_inc': SlotDefinition(name='collection_time_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Time the incubation was harvested/collected/ended. Only relevant for incubation samples.', alt_descriptions={}, title='incubation collection time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=3, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'experimental_factor_other': SlotDefinition(name='experimental_factor_other', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=\"Other details about your sample that you feel can't be accurately represented in the available columns.\", alt_descriptions={}, title='experimental factor- other', deprecated=None, todos=[], notes=[], comments=['This slot accepts open-ended text about your sample.', 'We recommend using key:value pairs.', 'Provided pairs will be considered for inclusion as future slots/terms in this data collection template.'], examples=[Example(value='experimental treatment: value', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:experimental_factor|additional_info'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=7, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'filter_method': SlotDefinition(name='filter_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Type of filter used or how the sample was filtered', alt_descriptions={}, title='filter method', deprecated=None, todos=[], notes=[], comments=['describe the filter or provide a catalog number and manufacturer'], examples=[Example(value='C18', description=None, object=None), Example(value='Basix PES, 13-100-106 FisherSci', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:filter_type'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=6, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'isotope_exposure': SlotDefinition(name='isotope_exposure', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='List isotope exposure or addition applied to your sample.', alt_descriptions={}, title='isotope exposure/addition', deprecated=None, todos=['Can we make the H218O correctly super and subscripted?'], notes=[], comments=['This is required when your experimental design includes the use of isotopically labeled compounds'], examples=[Example(value='13C glucose', description=None, object=None), Example(value='H218O', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:chem_administration'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=16, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{termLabel} {[termID]}; {timestamp}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^\\\\S+.*\\\\S+ \\\\[[a-zA-Z]{2,}:\\\\d+\\\\]; ([\\\\+-]?\\\\d{4}(?!\\\\d{2}\\\\b))((-?)((0[1-9]|1[0-2])(\\\\3([12]\\\\d|0[1-9]|3[01]))?|W([0-4]\\\\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\\\\d|[12]\\\\d{2}|3([0-5]\\\\d|6[1-6])))([T\\\\s]((([01]\\\\d|2[0-3])((:?)[0-5]\\\\d)?|24\\\\:?00)([\\\\.,]\\\\d+(?!:))?)?(\\\\17[0-5]\\\\d([\\\\.,]\\\\d+)?)?([zZ]|([\\\\+-])([01]\\\\d|2[0-3]):?([0-5]\\\\d)?)?)?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'micro_biomass_c_meth': SlotDefinition(name='micro_biomass_c_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining microbial biomass carbon', alt_descriptions={}, title='microbial biomass carbon method', deprecated=None, todos=['How should we separate values? | or ;? lets be consistent'], notes=[], comments=['required if \"microbial_biomass_c\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(87)90052-6', description=None, object=None), Example(value='https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:micro_biomass_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'micro_biomass_n_meth': SlotDefinition(name='micro_biomass_n_meth', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining microbial biomass nitrogen', alt_descriptions={}, title='microbial biomass nitrogen method', deprecated=None, todos=[], notes=[], comments=['required if \"microbial_biomass_n\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(87)90052-6', description=None, object=None), Example(value='https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:micro_biomass_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'microbial_biomass_c': SlotDefinition(name='microbial_biomass_c', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.', alt_descriptions={}, title='microbial biomass carbon', deprecated=None, todos=[], notes=[], comments=['If you provide this, correction factors used for conversion to the final units and method are required'], examples=[Example(value='0.05 ug C/g dry soil', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'microbial_biomass_n': SlotDefinition(name='microbial_biomass_n', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer.', alt_descriptions={}, title='microbial biomass nitrogen', deprecated=None, todos=[], notes=[], comments=['If you provide this, correction factors used for conversion to the final units and method are required'], examples=[Example(value='0.05 ug N/g dry soil', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=1004, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? \\\\S+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'non_microb_biomass': SlotDefinition(name='non_microb_biomass', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ;', alt_descriptions={}, title='non-microbial biomass', deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='insect 0.23 ug; plant 1g', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:biomass|microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=8, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text};{float} {unit}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[^;\\\\t\\\\r\\\\x0A\\\\|]+;[-+]?[0-9]*\\\\.?[0-9]+([eE][-+]?[0-9]+)? [^;\\\\t\\\\r\\\\x0A\\\\|]+$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'non_microb_biomass_method': SlotDefinition(name='non_microb_biomass_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Reference or method used in determining biomass', alt_descriptions={}, title='non-microbial biomass method', deprecated=None, todos=[], notes=[], comments=['required if \"non-microbial biomass\" is provided'], examples=[Example(value='https://doi.org/10.1038/s41467-021-26181-3', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:microbial_biomass'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=9, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'org_nitro_method': SlotDefinition(name='org_nitro_method', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Method used for obtaining organic nitrogen', alt_descriptions={}, title='organic nitrogen method', deprecated=None, todos=[], notes=[], comments=['required if \"org_nitro\" is provided'], examples=[Example(value='https://doi.org/10.1016/0038-0717(85)90144-0', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:org_nitro|tot_nitro_cont_meth'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=14, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{PMID}|{DOI}|{URL}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=None, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'other_treatment': SlotDefinition(name='other_treatment', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Other treatments applied to your samples that are not applicable to the provided fields', alt_descriptions={}, title='other treatments', deprecated=None, todos=[], notes=[], comments=['This is an open text field to provide any treatments that cannot be captured in the provided slots.'], examples=[], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:additional_info'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=15, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{text}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'start_date_inc': SlotDefinition(name='start_date_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Date the incubation was started. Only relevant for incubation samples.', alt_descriptions={}, title='incubation start date', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only'], comments=['Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable.'], examples=[Example(value='2021-04-15, 2021-04 and 2021 are all acceptable.', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=4, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{date, arbitrary precision}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^[12]\\\\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\\\\d|3[01]))?)?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'start_time_inc': SlotDefinition(name='start_time_inc', id_prefixes=[], definition_uri=None, local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Time the incubation was started. Only relevant for incubation samples.', alt_descriptions={}, title='incubation start time, GMT', deprecated=None, todos=[], notes=['MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only'], comments=['Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter'], examples=[Example(value='13:33 or 13:33:55', description=None, object=None)], in_subset=[], from_schema='https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc', imported_from=None, source=None, in_language=None, see_also=['MIxS:collection_date'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=5, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization='{time, seconds optional}', singular_name=None, domain=None, slot_uri=None, multivalued=False, inherited=None, readonly=None, ifabsent=None, list_elements_unique=None, list_elements_ordered=None, shared=None, key=None, identifier=None, designates_type=None, alias=None, owner='Biosample', domain_of=['Biosample'], subproperty_of=None, symmetric=None, reflexive=None, locally_reflexive=None, irreflexive=None, asymmetric=None, transitive=None, inverse=None, is_class_field=None, transitive_form_of=None, reflexive_transitive_form_of=None, role=None, is_usage_slot=None, usage_slot_name=None, relational_role=None, slot_group='mixs_inspired_section', is_grouping_slot=None, path_rule=None, disjoint_with=[], children_are_mutually_disjoint=None, union_of=[], range='string', range_expression=None, enum_range=None, required=None, recommended=True, inlined=None, inlined_as_list=None, minimum_value=None, maximum_value=None, pattern='^([01]?\\\\d|2[0-3]|24(?=:00?:00?$)):([0-5]\\\\d)(:([0-5]\\\\d))?$', structured_pattern=None, unit=None, implicit_prefix=None, value_presence=None, equals_string=None, equals_string_in=[], equals_number=None, equals_expression=None, minimum_cardinality=None, maximum_cardinality=None, has_member=None, all_members=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}, attributes={}, class_uri='nmdc_sub_schema:SoilMixsInspiredMixin', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'DhInterface': ClassDefinition(name='DhInterface', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DhInterface', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various standards, user facilities or analysis types', alt_descriptions={}, title='Dh Root Interface', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=[], slot_usage={}, attributes={}, class_uri='nmdc_sub_schema:DhInterface', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'SampleData': ClassDefinition(name='SampleData', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampleData', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='represents data produced by the DataHarmonizer tabs of the submission portal', alt_descriptions={}, title='SampleData', deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=['air_data', 'biofilm_data', 'built_env_data', 'host_associated_data', 'plant_associated_data', 'sediment_data', 'soil_data', 'wastewater_sludge_data', 'water_data', 'emsl_data', 'jgi_mg_data', 'jgi_mt_data'], slot_usage={}, attributes={}, class_uri='nmdc_sub_schema:SampleData', subclass_of=None, union_of=[], defining_slots=[], tree_root=True, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={}), 'NamedThing': ClassDefinition(name='NamedThing', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/NamedThing', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a databased entity or concept/class', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=True, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, slots=['id', 'name', 'description', 'alternative_identifiers'], slot_usage={}, attributes={}, class_uri='nmdc_sub_schema:NamedThing', subclass_of=None, union_of=[], defining_slots=[], tree_root=None, unique_keys={}, rules=[], classification_rules=[], slot_names_unique=None, represents_relationship=None, disjoint_with=[], children_are_mutually_disjoint=None, any_of=[], exactly_one_of=[], none_of=[], all_of=[], slot_conditions={})}" ; + linkml:enums "{'AnalysisTypeEnum': EnumDefinition(name='AnalysisTypeEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/AnalysisTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'metabolomics': PermissibleValue(text='metabolomics', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metagenomics': PermissibleValue(text='metagenomics', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metaproteomics': PermissibleValue(text='metaproteomics', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metatranscriptomics': PermissibleValue(text='metatranscriptomics', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'natural organic matter': PermissibleValue(text='natural organic matter', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'BioticRelationshipEnum': EnumDefinition(name='BioticRelationshipEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BioticRelationshipEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'commensalism': PermissibleValue(text='commensalism', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'sntc_name': Annotation(tag='sntc_name', value='samp_biotic_relationship', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['biotic_relationship_enum: free living', 'parasitism', 'commensalism', 'symbiotic', 'mutualism'], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=['https://genomicsstandardsconsortium.github.io/mixs/biotic_relationship_enum/'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'free living': PermissibleValue(text='free living', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mutualism': PermissibleValue(text='mutualism', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'parasitism': PermissibleValue(text='parasitism', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'symbiotic': PermissibleValue(text='symbiotic', description='placeholder enum descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'JgiContTypeEnum': EnumDefinition(name='JgiContTypeEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/JgiContTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'plate': PermissibleValue(text='plate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tube': PermissibleValue(text='tube', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'DnaSampleFormatEnum': EnumDefinition(name='DnaSampleFormatEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DnaSampleFormatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'10 mM Tris-HCl': PermissibleValue(text='10 mM Tris-HCl', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'DNAStable': PermissibleValue(text='DNAStable', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ethanol': PermissibleValue(text='Ethanol', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Low EDTA TE': PermissibleValue(text='Low EDTA TE', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'MDA reaction buffer': PermissibleValue(text='MDA reaction buffer', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'PBS': PermissibleValue(text='PBS', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Pellet': PermissibleValue(text='Pellet', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'RNAStable': PermissibleValue(text='RNAStable', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'TE': PermissibleValue(text='TE', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Water': PermissibleValue(text='Water', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EcosystemCategoryEnum': EnumDefinition(name='EcosystemCategoryEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EcosystemCategoryEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Terrestrial': PermissibleValue(text='Terrestrial', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=['https://github.com/microbiomedata/sheets_and_friends/issues/22'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EcosystemEnum': EnumDefinition(name='EcosystemEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EcosystemEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Environmental': PermissibleValue(text='Environmental', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EcosystemSubtypeEnum': EnumDefinition(name='EcosystemSubtypeEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EcosystemSubtypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Biocrust': PermissibleValue(text='Biocrust', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Biofilm': PermissibleValue(text='Biofilm', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Bulk soil': PermissibleValue(text='Bulk soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Clay': PermissibleValue(text='Clay', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Floodplain': PermissibleValue(text='Floodplain', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Fossil': PermissibleValue(text='Fossil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Glacier': PermissibleValue(text='Glacier', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Loam': PermissibleValue(text='Loam', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Mineral horizon': PermissibleValue(text='Mineral horizon', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Nature reserve': PermissibleValue(text='Nature reserve', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Organic layer': PermissibleValue(text='Organic layer', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Paddy field/soil': PermissibleValue(text='Paddy field/soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Pasture': PermissibleValue(text='Pasture', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Peat': PermissibleValue(text='Peat', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ranch': PermissibleValue(text='Ranch', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Sand': PermissibleValue(text='Sand', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Silt': PermissibleValue(text='Silt', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Soil crust': PermissibleValue(text='Soil crust', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Unclassified': PermissibleValue(text='Unclassified', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Watershed': PermissibleValue(text='Watershed', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Wetlands': PermissibleValue(text='Wetlands', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EcosystemTypeEnum': EnumDefinition(name='EcosystemTypeEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EcosystemTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Soil': PermissibleValue(text='Soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EnvPackageEnum': EnumDefinition(name='EnvPackageEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EnvPackageEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'soil': PermissibleValue(text='soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[\"I don't think this is a MIxS term anymore, so it make sense to define it here\"], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'GrowthFacilEnum': EnumDefinition(name='GrowthFacilEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/GrowthFacilEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'experimental_garden': PermissibleValue(text='experimental_garden', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'sntc_name': Annotation(tag='sntc_name', value='growth_facility', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['string range according to MIxS'], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=['https://genomicsstandardsconsortium.github.io/mixs/growth_facil/'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'field': PermissibleValue(text='field', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'field_incubation': PermissibleValue(text='field_incubation', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'glasshouse': PermissibleValue(text='glasshouse', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'greenhouse': PermissibleValue(text='greenhouse', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'growth_chamber': PermissibleValue(text='growth_chamber', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lab_incubation': PermissibleValue(text='lab_incubation', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'open_top_chamber': PermissibleValue(text='open_top_chamber', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'RelToOxygenEnum': EnumDefinition(name='RelToOxygenEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RelToOxygenEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'aerobe': PermissibleValue(text='aerobe', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'sntc_name': Annotation(tag='sntc_name', value='oxygen_relationship', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=['https://genomicsstandardsconsortium.github.io/mixs/rel_to_oxygen_enum/'], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'anaerobe': PermissibleValue(text='anaerobe', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'facultative': PermissibleValue(text='facultative', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'microaerophilic': PermissibleValue(text='microaerophilic', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'microanaerobe': PermissibleValue(text='microanaerobe', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'obligate aerobe': PermissibleValue(text='obligate aerobe', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'obligate anaerobe': PermissibleValue(text='obligate anaerobe', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'RnaSampleFormatEnum': EnumDefinition(name='RnaSampleFormatEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RnaSampleFormatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'10 mM Tris-HCl': PermissibleValue(text='10 mM Tris-HCl', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'DNAStable': PermissibleValue(text='DNAStable', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ethanol': PermissibleValue(text='Ethanol', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Low EDTA TE': PermissibleValue(text='Low EDTA TE', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'MDA reaction buffer': PermissibleValue(text='MDA reaction buffer', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'PBS': PermissibleValue(text='PBS', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Pellet': PermissibleValue(text='Pellet', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'RNAStable': PermissibleValue(text='RNAStable', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'TE': PermissibleValue(text='TE', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Water': PermissibleValue(text='Water', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'SampleTypeEnum': EnumDefinition(name='SampleTypeEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampleTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'soil': PermissibleValue(text='soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'water_extract_soil': PermissibleValue(text='water_extract_soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'SpecificEcosystemEnum': EnumDefinition(name='SpecificEcosystemEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SpecificEcosystemEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Agricultural': PermissibleValue(text='Agricultural', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Agricultural land': PermissibleValue(text='Agricultural land', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Agricultural soil': PermissibleValue(text='Agricultural soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Alpine': PermissibleValue(text='Alpine', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Bog': PermissibleValue(text='Bog', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Boreal forest': PermissibleValue(text='Boreal forest', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Contaminated': PermissibleValue(text='Contaminated', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Desert': PermissibleValue(text='Desert', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Farm': PermissibleValue(text='Farm', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Forest soil': PermissibleValue(text='Forest soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Forest Soil': PermissibleValue(text='Forest Soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Grasslands': PermissibleValue(text='Grasslands', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Meadow': PermissibleValue(text='Meadow', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Mine': PermissibleValue(text='Mine', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Mine drainage': PermissibleValue(text='Mine drainage', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Oil-contaminated': PermissibleValue(text='Oil-contaminated', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Orchard soil': PermissibleValue(text='Orchard soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Permafrost': PermissibleValue(text='Permafrost', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Riparian soil': PermissibleValue(text='Riparian soil', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'River': PermissibleValue(text='River', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Shrubland': PermissibleValue(text='Shrubland', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Tropical rainforest': PermissibleValue(text='Tropical rainforest', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Unclassified': PermissibleValue(text='Unclassified', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Uranium contaminated': PermissibleValue(text='Uranium contaminated', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'StoreCondEnum': EnumDefinition(name='StoreCondEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/StoreCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'fresh': PermissibleValue(text='fresh', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'sntc_name': Annotation(tag='sntc_name', value='storage_condt', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['see samp_store_dur, samp_store_loc, samp_store_temp and store_cond (which takes a string range according to mixs-source).'], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'frozen': PermissibleValue(text='frozen', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lyophilized': PermissibleValue(text='lyophilized', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description='placeholder PV descr', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'YesNoEnum': EnumDefinition(name='YesNoEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/YesNoEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='replaces DnaDnaseEnum and DnaseRnaEnum', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'no': PermissibleValue(text='no', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'yes': PermissibleValue(text='yes', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EnvBroadScaleSoilEnum': EnumDefinition(name='EnvBroadScaleSoilEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EnvBroadScaleSoilEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr, DO NOT SORT', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'arid biome [ENVO:01001838]': PermissibleValue(text='arid biome [ENVO:01001838]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'subalpine biome [ENVO:01001837]': PermissibleValue(text='subalpine biome [ENVO:01001837]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'montane biome [ENVO:01001836]': PermissibleValue(text='montane biome [ENVO:01001836]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__montane savanna biome [ENVO:01000223]': PermissibleValue(text='__montane savanna biome [ENVO:01000223]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__montane shrubland biome [ENVO:01000216]': PermissibleValue(text='__montane shrubland biome [ENVO:01000216]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'alpine biome [ENVO:01001835]': PermissibleValue(text='alpine biome [ENVO:01001835]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__alpine tundra biome [ENVO:01001505]': PermissibleValue(text='__alpine tundra biome [ENVO:01001505]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'subpolar biome [ENVO:01001834]': PermissibleValue(text='subpolar biome [ENVO:01001834]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'subtropical biome [ENVO:01001832]': PermissibleValue(text='subtropical biome [ENVO:01001832]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__mediterranean biome [ENVO:01001833]': PermissibleValue(text='__mediterranean biome [ENVO:01001833]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____mediterranean savanna biome [ENVO:01000229]': PermissibleValue(text='____mediterranean savanna biome [ENVO:01000229]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____mediterranean shrubland biome [ENVO:01000217]': PermissibleValue(text='____mediterranean shrubland biome [ENVO:01000217]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____mediterranean woodland biome [ENVO:01000208]': PermissibleValue(text='____mediterranean woodland biome [ENVO:01000208]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__subtropical woodland biome [ENVO:01000222]': PermissibleValue(text='__subtropical woodland biome [ENVO:01000222]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__subtropical shrubland biome [ENVO:01000213]': PermissibleValue(text='__subtropical shrubland biome [ENVO:01000213]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__subtropical savanna biome [ENVO:01000187]': PermissibleValue(text='__subtropical savanna biome [ENVO:01000187]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'temperate biome [ENVO:01001831]': PermissibleValue(text='temperate biome [ENVO:01001831]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__temperate woodland biome [ENVO:01000221]': PermissibleValue(text='__temperate woodland biome [ENVO:01000221]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__temperate shrubland biome [ENVO:01000215]': PermissibleValue(text='__temperate shrubland biome [ENVO:01000215]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__temperate savanna biome [ENVO:01000189]': PermissibleValue(text='__temperate savanna biome [ENVO:01000189]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tropical biome [ENVO:01001830]': PermissibleValue(text='tropical biome [ENVO:01001830]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__tropical woodland biome [ENVO:01000220]': PermissibleValue(text='__tropical woodland biome [ENVO:01000220]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__tropical shrubland biome [ENVO:01000214]': PermissibleValue(text='__tropical shrubland biome [ENVO:01000214]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__tropical savanna biome [ENVO:01000188]': PermissibleValue(text='__tropical savanna biome [ENVO:01000188]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'polar biome [ENVO:01000339]': PermissibleValue(text='polar biome [ENVO:01000339]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'terrestrial biome [ENVO:00000446]': PermissibleValue(text='terrestrial biome [ENVO:00000446]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__anthropogenic terrestrial biome [ENVO:01000219]': PermissibleValue(text='__anthropogenic terrestrial biome [ENVO:01000219]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____dense settlement biome [ENVO:01000248]': PermissibleValue(text='____dense settlement biome [ENVO:01000248]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______urban biome [ENVO:01000249]': PermissibleValue(text='______urban biome [ENVO:01000249]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____rangeland biome [ENVO:01000247]': PermissibleValue(text='____rangeland biome [ENVO:01000247]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____village biome [ENVO:01000246]': PermissibleValue(text='____village biome [ENVO:01000246]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__mangrove biome [ENVO:01000181]': PermissibleValue(text='__mangrove biome [ENVO:01000181]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__tundra biome [ENVO:01000180]': PermissibleValue(text='__tundra biome [ENVO:01000180]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____alpine tundra biome [ENVO:01001505]': PermissibleValue(text='____alpine tundra biome [ENVO:01001505]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__shrubland biome [ENVO:01000176]': PermissibleValue(text='__shrubland biome [ENVO:01000176]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____tidal mangrove shrubland [ENVO:01001369]': PermissibleValue(text='____tidal mangrove shrubland [ENVO:01001369]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____xeric shrubland biome [ENVO:01000218]': PermissibleValue(text='____xeric shrubland biome [ENVO:01000218]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____montane shrubland biome [ENVO:01000216]': PermissibleValue(text='____montane shrubland biome [ENVO:01000216]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____temperate shrubland biome [ENVO:01000215]': PermissibleValue(text='____temperate shrubland biome [ENVO:01000215]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____tropical shrubland biome [ENVO:01000214]': PermissibleValue(text='____tropical shrubland biome [ENVO:01000214]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____subtropical shrubland biome [ENVO:01000213]': PermissibleValue(text='____subtropical shrubland biome [ENVO:01000213]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______mediterranean shrubland biome [ENVO:01000217]': PermissibleValue(text='______mediterranean shrubland biome [ENVO:01000217]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__woodland biome [ENVO:01000175]': PermissibleValue(text='__woodland biome [ENVO:01000175]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____subtropical woodland biome [ENVO:01000222]': PermissibleValue(text='____subtropical woodland biome [ENVO:01000222]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______mediterranean woodland biome [ENVO:01000208]': PermissibleValue(text='______mediterranean woodland biome [ENVO:01000208]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____temperate woodland biome [ENVO:01000221]': PermissibleValue(text='____temperate woodland biome [ENVO:01000221]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____tropical woodland biome [ENVO:01000220]': PermissibleValue(text='____tropical woodland biome [ENVO:01000220]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____savanna biome [ENVO:01000178]': PermissibleValue(text='____savanna biome [ENVO:01000178]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______montane savanna biome [ENVO:01000223]': PermissibleValue(text='______montane savanna biome [ENVO:01000223]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______flooded savanna biome [ENVO:01000190]': PermissibleValue(text='______flooded savanna biome [ENVO:01000190]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______temperate savanna biome [ENVO:01000189]': PermissibleValue(text='______temperate savanna biome [ENVO:01000189]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______tropical savanna biome [ENVO:01000188]': PermissibleValue(text='______tropical savanna biome [ENVO:01000188]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______subtropical savanna biome [ENVO:01000187]': PermissibleValue(text='______subtropical savanna biome [ENVO:01000187]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________mediterranean savanna biome [ENVO:01000229]': PermissibleValue(text='________mediterranean savanna biome [ENVO:01000229]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EnvMediumSoilEnum': EnumDefinition(name='EnvMediumSoilEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EnvMediumSoilEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr, DO NOT SORT', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'pathogen-suppressive soil [ENVO:03600036]': PermissibleValue(text='pathogen-suppressive soil [ENVO:03600036]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mangrove biome soil [ENVO:02000138]': PermissibleValue(text='mangrove biome soil [ENVO:02000138]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'surface soil [ENVO:02000059]': PermissibleValue(text='surface soil [ENVO:02000059]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'frost-susceptible soil [ENVO:01001638]': PermissibleValue(text='frost-susceptible soil [ENVO:01001638]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bare soil [ENVO:01001616]': PermissibleValue(text='bare soil [ENVO:01001616]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'frozen soil [ENVO:01001526]': PermissibleValue(text='frozen soil [ENVO:01001526]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__friable-frozen soil [ENVO:01001528]': PermissibleValue(text='__friable-frozen soil [ENVO:01001528]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__plastic-frozen soil [ENVO:01001527]': PermissibleValue(text='__plastic-frozen soil [ENVO:01001527]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__hard-frozen soil [ENVO:01001525]': PermissibleValue(text='__hard-frozen soil [ENVO:01001525]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__frozen compost soil [ENVO:00005765]': PermissibleValue(text='__frozen compost soil [ENVO:00005765]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__cryosol [ENVO:00002236]': PermissibleValue(text='__cryosol [ENVO:00002236]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ultisol [ENVO:01001397]': PermissibleValue(text='ultisol [ENVO:01001397]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__acrisol [ENVO:00002234]': PermissibleValue(text='__acrisol [ENVO:00002234]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'acidic soil [ENVO:01001185]': PermissibleValue(text='acidic soil [ENVO:01001185]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bulk soil [ENVO:00005802]': PermissibleValue(text='bulk soil [ENVO:00005802]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'red soil [ENVO:00005790]': PermissibleValue(text='red soil [ENVO:00005790]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'upland soil [ENVO:00005786]': PermissibleValue(text='upland soil [ENVO:00005786]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__mountain forest soil [ENVO:00005769]': PermissibleValue(text='__mountain forest soil [ENVO:00005769]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__dune soil [ENVO:00002260]': PermissibleValue(text='__dune soil [ENVO:00002260]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ornithogenic soil [ENVO:00005782]': PermissibleValue(text='ornithogenic soil [ENVO:00005782]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'heat stressed soil [ENVO:00005781]': PermissibleValue(text='heat stressed soil [ENVO:00005781]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'greenhouse soil [ENVO:00005780]': PermissibleValue(text='greenhouse soil [ENVO:00005780]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tropical soil [ENVO:00005778]': PermissibleValue(text='tropical soil [ENVO:00005778]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'pasture soil [ENVO:00005773]': PermissibleValue(text='pasture soil [ENVO:00005773]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'muddy soil [ENVO:00005771]': PermissibleValue(text='muddy soil [ENVO:00005771]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'orchid soil [ENVO:00005768]': PermissibleValue(text='orchid soil [ENVO:00005768]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'manured soil [ENVO:00005767]': PermissibleValue(text='manured soil [ENVO:00005767]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'limed soil [ENVO:00005766]': PermissibleValue(text='limed soil [ENVO:00005766]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'pond soil [ENVO:00005764]': PermissibleValue(text='pond soil [ENVO:00005764]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'meadow soil [ENVO:00005761]': PermissibleValue(text='meadow soil [ENVO:00005761]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'burned soil [ENVO:00005760]': PermissibleValue(text='burned soil [ENVO:00005760]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lawn soil [ENVO:00005756]': PermissibleValue(text='lawn soil [ENVO:00005756]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'field soil [ENVO:00005755]': PermissibleValue(text='field soil [ENVO:00005755]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__paddy field soil [ENVO:00005740]': PermissibleValue(text='__paddy field soil [ENVO:00005740]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____peaty paddy field soil [ENVO:00005776]': PermissibleValue(text='____peaty paddy field soil [ENVO:00005776]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____alluvial paddy field soil [ENVO:00005759]': PermissibleValue(text='____alluvial paddy field soil [ENVO:00005759]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fertilized soil [ENVO:00005754]': PermissibleValue(text='fertilized soil [ENVO:00005754]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sawah soil [ENVO:00005752]': PermissibleValue(text='sawah soil [ENVO:00005752]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'jungle soil [ENVO:00005751]': PermissibleValue(text='jungle soil [ENVO:00005751]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'grassland soil [ENVO:00005750]': PermissibleValue(text='grassland soil [ENVO:00005750]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__steppe soil [ENVO:00005777]': PermissibleValue(text='__steppe soil [ENVO:00005777]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__savanna soil [ENVO:00005746]': PermissibleValue(text='__savanna soil [ENVO:00005746]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'farm soil [ENVO:00005749]': PermissibleValue(text='farm soil [ENVO:00005749]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__rubber plantation soil [ENVO:00005788]': PermissibleValue(text='__rubber plantation soil [ENVO:00005788]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__orchard soil [ENVO:00005772]': PermissibleValue(text='__orchard soil [ENVO:00005772]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'dry soil [ENVO:00005748]': PermissibleValue(text='dry soil [ENVO:00005748]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'compost soil [ENVO:00005747]': PermissibleValue(text='compost soil [ENVO:00005747]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'roadside soil [ENVO:00005743]': PermissibleValue(text='roadside soil [ENVO:00005743]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'arable soil [ENVO:00005742]': PermissibleValue(text='arable soil [ENVO:00005742]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'alpine soil [ENVO:00005741]': PermissibleValue(text='alpine soil [ENVO:00005741]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'alluvial soil [ENVO:00002871]': PermissibleValue(text='alluvial soil [ENVO:00002871]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__alluvial paddy field soil [ENVO:00005759]': PermissibleValue(text='__alluvial paddy field soil [ENVO:00005759]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__alluvial swamp soil [ENVO:00005758]': PermissibleValue(text='__alluvial swamp soil [ENVO:00005758]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'technosol [ENVO:00002275]': PermissibleValue(text='technosol [ENVO:00002275]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stagnosol [ENVO:00002274]': PermissibleValue(text='stagnosol [ENVO:00002274]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fluvisol [ENVO:00002273]': PermissibleValue(text='fluvisol [ENVO:00002273]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'garden soil [ENVO:00002263]': PermissibleValue(text='garden soil [ENVO:00002263]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__vegetable garden soil [ENVO:00005779]': PermissibleValue(text='__vegetable garden soil [ENVO:00005779]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__allotment garden soil [ENVO:00005744]': PermissibleValue(text='__allotment garden soil [ENVO:00005744]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'clay soil [ENVO:00002262]': PermissibleValue(text='clay soil [ENVO:00002262]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'forest soil [ENVO:00002261]': PermissibleValue(text='forest soil [ENVO:00002261]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__eucalyptus forest soil [ENVO:00005787]': PermissibleValue(text='__eucalyptus forest soil [ENVO:00005787]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__spruce forest soil [ENVO:00005784]': PermissibleValue(text='__spruce forest soil [ENVO:00005784]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__leafy wood soil [ENVO:00005783]': PermissibleValue(text='__leafy wood soil [ENVO:00005783]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__beech forest soil [ENVO:00005770]': PermissibleValue(text='__beech forest soil [ENVO:00005770]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'agricultural soil [ENVO:00002259]': PermissibleValue(text='agricultural soil [ENVO:00002259]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__bluegrass field soil [ENVO:00005789]': PermissibleValue(text='__bluegrass field soil [ENVO:00005789]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'loam [ENVO:00002258]': PermissibleValue(text='loam [ENVO:00002258]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__clay loam [ENVO:06105277]': PermissibleValue(text='__clay loam [ENVO:06105277]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____silty clay loam [ENVO:06105278]': PermissibleValue(text='____silty clay loam [ENVO:06105278]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____sandy clay loam [ENVO:06105276]': PermissibleValue(text='____sandy clay loam [ENVO:06105276]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__silty loam [ENVO:06105275]': PermissibleValue(text='__silty loam [ENVO:06105275]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__sandy loam [ENVO:06105274]': PermissibleValue(text='__sandy loam [ENVO:06105274]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'podzol [ENVO:00002257]': PermissibleValue(text='podzol [ENVO:00002257]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'regosol [ENVO:00002256]': PermissibleValue(text='regosol [ENVO:00002256]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'solonetz [ENVO:00002255]': PermissibleValue(text='solonetz [ENVO:00002255]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vertisol [ENVO:00002254]': PermissibleValue(text='vertisol [ENVO:00002254]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'umbrisol [ENVO:00002253]': PermissibleValue(text='umbrisol [ENVO:00002253]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'solonchak [ENVO:00002252]': PermissibleValue(text='solonchak [ENVO:00002252]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'planosol [ENVO:00002251]': PermissibleValue(text='planosol [ENVO:00002251]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'plinthosol [ENVO:00002250]': PermissibleValue(text='plinthosol [ENVO:00002250]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'phaeozem [ENVO:00002249]': PermissibleValue(text='phaeozem [ENVO:00002249]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'luvisol [ENVO:00002248]': PermissibleValue(text='luvisol [ENVO:00002248]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'nitisol [ENVO:00002247]': PermissibleValue(text='nitisol [ENVO:00002247]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ferralsol [ENVO:00002246]': PermissibleValue(text='ferralsol [ENVO:00002246]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gypsisol [ENVO:00002245]': PermissibleValue(text='gypsisol [ENVO:00002245]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gleysol [ENVO:00002244]': PermissibleValue(text='gleysol [ENVO:00002244]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'histosol [ENVO:00002243]': PermissibleValue(text='histosol [ENVO:00002243]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__peat soil [ENVO:00005774]': PermissibleValue(text='__peat soil [ENVO:00005774]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lixisol [ENVO:00002242]': PermissibleValue(text='lixisol [ENVO:00002242]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'leptosol [ENVO:00002241]': PermissibleValue(text='leptosol [ENVO:00002241]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'kastanozem [ENVO:00002240]': PermissibleValue(text='kastanozem [ENVO:00002240]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'calcisol [ENVO:00002239]': PermissibleValue(text='calcisol [ENVO:00002239]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'durisol [ENVO:00002238]': PermissibleValue(text='durisol [ENVO:00002238]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'chernozem [ENVO:00002237]': PermissibleValue(text='chernozem [ENVO:00002237]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cambisol [ENVO:00002235]': PermissibleValue(text='cambisol [ENVO:00002235]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'albeluvisol [ENVO:00002233]': PermissibleValue(text='albeluvisol [ENVO:00002233]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'andosol [ENVO:00002232]': PermissibleValue(text='andosol [ENVO:00002232]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__volcanic soil [ENVO:01001841]': PermissibleValue(text='__volcanic soil [ENVO:01001841]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'alisol [ENVO:00002231]': PermissibleValue(text='alisol [ENVO:00002231]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'anthrosol [ENVO:00002230]': PermissibleValue(text='anthrosol [ENVO:00002230]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'arenosol [ENVO:00002229]': PermissibleValue(text='arenosol [ENVO:00002229]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'EnvLocalScaleSoilEnum': EnumDefinition(name='EnvLocalScaleSoilEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/EnvLocalScaleSoilEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr, DO NOT SORT', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'astronomical body part [ENVO:01000813]': PermissibleValue(text='astronomical body part [ENVO:01000813]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__coast [ENVO:01000687]': PermissibleValue(text='__coast [ENVO:01000687]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__solid astronomical body part [ENVO:00000191]': PermissibleValue(text='__solid astronomical body part [ENVO:00000191]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______landform [ENVO:01001886]': PermissibleValue(text='______landform [ENVO:01001886]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______channel [ENVO:03000117]': PermissibleValue(text='______channel [ENVO:03000117]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________tunnel [ENVO:00000068]': PermissibleValue(text='________tunnel [ENVO:00000068]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______surface landform [ENVO:01001884]': PermissibleValue(text='______surface landform [ENVO:01001884]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________desert [ENVO:01001357]': PermissibleValue(text='________desert [ENVO:01001357]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________outcrop [ENVO:01000302]': PermissibleValue(text='________outcrop [ENVO:01000302]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________boulder field [ENVO:00000537]': PermissibleValue(text='________boulder field [ENVO:00000537]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________landfill [ENVO:00000533]': PermissibleValue(text='________landfill [ENVO:00000533]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________hummock [ENVO:00000516]': PermissibleValue(text='________hummock [ENVO:00000516]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________terrace [ENVO:00000508]': PermissibleValue(text='________terrace [ENVO:00000508]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], 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PermissibleValue(text='__________lake shore [ENVO:00000382]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________dry lake [ENVO:00000277]': PermissibleValue(text='________dry lake [ENVO:00000277]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, 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structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________isthmus [ENVO:00000174]': PermissibleValue(text='________isthmus [ENVO:00000174]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________badland [ENVO:00000127]': PermissibleValue(text='________badland [ENVO:00000127]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________volcanic feature [ENVO:00000094]': PermissibleValue(text='________volcanic feature [ENVO:00000094]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, 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deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________tuff cone [ENVO:01000664]': PermissibleValue(text='____________tuff cone [ENVO:01000664]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________beach [ENVO:00000091]': PermissibleValue(text='________beach [ENVO:00000091]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________plain [ENVO:00000086]': PermissibleValue(text='________plain [ENVO:00000086]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________cave [ENVO:00000067]': PermissibleValue(text='________cave [ENVO:00000067]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, 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narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______slope [ENVO:00002000]': PermissibleValue(text='______slope [ENVO:00002000]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________talus slope [ENVO:01000334]': PermissibleValue(text='________talus slope [ENVO:01000334]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________hillside [ENVO:01000333]': PermissibleValue(text='________hillside [ENVO:01000333]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________levee [ENVO:00000178]': PermissibleValue(text='________levee [ENVO:00000178]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________bank [ENVO:00000141]': PermissibleValue(text='________bank [ENVO:00000141]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________cliff [ENVO:00000087]': PermissibleValue(text='________cliff [ENVO:00000087]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______peak [ENVO:00000480]': PermissibleValue(text='______peak [ENVO:00000480]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______depressed landform [ENVO:00000309]': PermissibleValue(text='______depressed landform [ENVO:00000309]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________geographic basin [ENVO:03000015]': PermissibleValue(text='________geographic basin [ENVO:03000015]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________valley [ENVO:00000100]': PermissibleValue(text='__________valley [ENVO:00000100]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________canyon [ENVO:00000169]': PermissibleValue(text='____________canyon [ENVO:00000169]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________dry valley [ENVO:00000128]': PermissibleValue(text='____________dry valley [ENVO:00000128]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________glacial valley [ENVO:00000248]': PermissibleValue(text='____________glacial valley [ENVO:00000248]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________pit [ENVO:01001871]': PermissibleValue(text='________pit [ENVO:01001871]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________trench [ENVO:01000649]': PermissibleValue(text='________trench [ENVO:01000649]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________swale [ENVO:00000543]': PermissibleValue(text='________swale [ENVO:00000543]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________crater [ENVO:00000514]': PermissibleValue(text='________crater [ENVO:00000514]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________impact crater [ENVO:01001071]': PermissibleValue(text='__________impact crater [ENVO:01001071]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________volcanic crater [ENVO:00000246]': PermissibleValue(text='__________volcanic crater [ENVO:00000246]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________caldera [ENVO:00000096]': PermissibleValue(text='__________caldera [ENVO:00000096]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________channel of a watercourse [ENVO:00000395]': PermissibleValue(text='________channel of a watercourse [ENVO:00000395]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________strait [ENVO:00000394]': PermissibleValue(text='__________strait [ENVO:00000394]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________dry stream [ENVO:00000278]': PermissibleValue(text='__________dry stream [ENVO:00000278]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________dry river [ENVO:01000995]': PermissibleValue(text='____________dry river [ENVO:01000995]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________artificial channel [ENVO:00000121]': PermissibleValue(text='__________artificial channel [ENVO:00000121]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________plumbing drain [ENVO:01000924]': PermissibleValue(text='____________plumbing drain [ENVO:01000924]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________ditch [ENVO:00000037]': PermissibleValue(text='____________ditch [ENVO:00000037]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________sinkhole [ENVO:00000195]': PermissibleValue(text='________sinkhole [ENVO:00000195]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______elevated landform [ENVO:00000176]': PermissibleValue(text='______elevated landform [ENVO:00000176]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________flattened elevation [ENVO:01001491]': PermissibleValue(text='________flattened elevation [ENVO:01001491]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________butte [ENVO:00000287]': PermissibleValue(text='__________butte [ENVO:00000287]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________plateau [ENVO:00000182]': PermissibleValue(text='__________plateau [ENVO:00000182]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________mesa [ENVO:00000179]': PermissibleValue(text='__________mesa [ENVO:00000179]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________pinnacle [ENVO:00000481]': PermissibleValue(text='________pinnacle [ENVO:00000481]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________mount [ENVO:00000477]': PermissibleValue(text='________mount [ENVO:00000477]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________hill [ENVO:00000083]': PermissibleValue(text='__________hill [ENVO:00000083]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____________dune [ENVO:00000170]': PermissibleValue(text='____________dune [ENVO:00000170]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__________mountain [ENVO:00000081]': PermissibleValue(text='__________mountain [ENVO:00000081]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________ridge [ENVO:00000283]': PermissibleValue(text='________ridge [ENVO:00000283]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____part of a landmass [ENVO:01001781]': PermissibleValue(text='____part of a landmass [ENVO:01001781]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______peninsula [ENVO:00000305]': PermissibleValue(text='______peninsula [ENVO:00000305]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____geological fracture [ENVO:01000667]': PermissibleValue(text='____geological fracture [ENVO:01000667]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______vein [ENVO:01000670]': PermissibleValue(text='______vein [ENVO:01000670]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______geological fault [ENVO:01000668]': PermissibleValue(text='______geological fault [ENVO:01000668]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________active geological fault [ENVO:01000669]': PermissibleValue(text='________active geological fault [ENVO:01000669]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______volcano [ENVO:00000247]': PermissibleValue(text='______volcano [ENVO:00000247]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__field [ENVO:01000352]': PermissibleValue(text='__field [ENVO:01000352]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____lava field [ENVO:01000437]': PermissibleValue(text='____lava field [ENVO:01000437]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____gravel field [ENVO:00000548]': PermissibleValue(text='____gravel field [ENVO:00000548]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____woodland clearing [ENVO:00000444]': PermissibleValue(text='____woodland clearing [ENVO:00000444]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____agricultural field [ENVO:00000114]': PermissibleValue(text='____agricultural field [ENVO:00000114]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____snow field [ENVO:00000146]': PermissibleValue(text='____snow field [ENVO:00000146]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '__geographic feature [ENVO:00000000]': PermissibleValue(text='__geographic feature [ENVO:00000000]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____hydrographic feature [ENVO:00000012]': PermissibleValue(text='____hydrographic feature [ENVO:00000012]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______reef [ENVO:01001899]': PermissibleValue(text='______reef [ENVO:01001899]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______inlet [ENVO:00000475]': PermissibleValue(text='______inlet [ENVO:00000475]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______bar [ENVO:00000167]': PermissibleValue(text='______bar [ENVO:00000167]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________tombolo [ENVO:00000420]': PermissibleValue(text='________tombolo [ENVO:00000420]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '____anthropogenic geographic feature [ENVO:00000002]': PermissibleValue(text='____anthropogenic geographic feature [ENVO:00000002]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______yard [ENVO:03600053]': PermissibleValue(text='______yard [ENVO:03600053]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '________residential backyard [ENVO:03600033]': PermissibleValue(text='________residential backyard [ENVO:03600033]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______market [ENVO:01000987]': PermissibleValue(text='______market [ENVO:01000987]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______park [ENVO:00000562]': PermissibleValue(text='______park [ENVO:00000562]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______well [ENVO:00000026]': PermissibleValue(text='______well [ENVO:00000026]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '______garden [ENVO:00000011]': PermissibleValue(text='______garden [ENVO:00000011]', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'OxyStatSampEnum': EnumDefinition(name='OxyStatSampEnum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/OxyStatSampEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='placeholder enum descr, DO NOT SORT', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'aerobic': PermissibleValue(text='aerobic', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'anaerobic': PermissibleValue(text='anaerobic', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description='placeholder PV descr, DO NOT SORT', meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_mat_enum': EnumDefinition(name='window_mat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowMatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'clad': PermissibleValue(text='clad', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fiberglass': PermissibleValue(text='fiberglass', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vinyl': PermissibleValue(text='vinyl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood': PermissibleValue(text='wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'substructure_type_enum': EnumDefinition(name='substructure_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SubstructureTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'crawlspace': PermissibleValue(text='crawlspace', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'slab on grade': PermissibleValue(text='slab on grade', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'basement': PermissibleValue(text='basement', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'filter_type_enum': EnumDefinition(name='filter_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FilterTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'particulate air filter': PermissibleValue(text='particulate air filter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'chemical air filter': PermissibleValue(text='chemical air filter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'low-MERV pleated media': PermissibleValue(text='low-MERV pleated media', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'HEPA': PermissibleValue(text='HEPA', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'electrostatic': PermissibleValue(text='electrostatic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gas-phase or ultraviolet air treatments': PermissibleValue(text='gas-phase or ultraviolet air treatments', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'weekday_enum': EnumDefinition(name='weekday_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WeekdayEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Monday': PermissibleValue(text='Monday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Tuesday': PermissibleValue(text='Tuesday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Wednesday': PermissibleValue(text='Wednesday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Thursday': PermissibleValue(text='Thursday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Friday': PermissibleValue(text='Friday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Saturday': PermissibleValue(text='Saturday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Sunday': PermissibleValue(text='Sunday', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'train_line_enum': EnumDefinition(name='train_line_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/TrainLineEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'red': PermissibleValue(text='red', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'green': PermissibleValue(text='green', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'orange': PermissibleValue(text='orange', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_direct_enum': EnumDefinition(name='door_direct_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorDirectEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'inward': PermissibleValue(text='inward', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'outward': PermissibleValue(text='outward', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sideways': PermissibleValue(text='sideways', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'furniture_enum': EnumDefinition(name='furniture_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FurnitureEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'cabinet': PermissibleValue(text='cabinet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'chair': PermissibleValue(text='chair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'desks': PermissibleValue(text='desks', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'occup_document_enum': EnumDefinition(name='occup_document_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/OccupDocumentEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'automated count': PermissibleValue(text='automated count', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'estimate': PermissibleValue(text='estimate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'manual count': PermissibleValue(text='manual count', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'videos': PermissibleValue(text='videos', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_horiz_pos_enum': EnumDefinition(name='window_horiz_pos_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowHorizPosEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'left': PermissibleValue(text='left', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'middle': PermissibleValue(text='middle', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'right': PermissibleValue(text='right', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_cover_enum': EnumDefinition(name='window_cover_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowCoverEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'blinds': PermissibleValue(text='blinds', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'curtains': PermissibleValue(text='curtains', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'none': PermissibleValue(text='none', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'shading_device_cond_enum': EnumDefinition(name='shading_device_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ShadingDeviceCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'int_wall_cond_enum': EnumDefinition(name='int_wall_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/IntWallCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'light_type_enum': EnumDefinition(name='light_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/LightTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'natural light': PermissibleValue(text='natural light', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'electric light': PermissibleValue(text='electric light', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'desk lamp': PermissibleValue(text='desk lamp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'flourescent lights': PermissibleValue(text='flourescent lights', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'none': PermissibleValue(text='none', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ext_window_orient_enum': EnumDefinition(name='ext_window_orient_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ExtWindowOrientEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northeast': PermissibleValue(text='northeast', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southeast': PermissibleValue(text='southeast', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southwest': PermissibleValue(text='southwest', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northwest': PermissibleValue(text='northwest', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'arch_struc_enum': EnumDefinition(name='arch_struc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ArchStrucEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'building': PermissibleValue(text='building', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shed': PermissibleValue(text='shed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'home': PermissibleValue(text='home', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'floor_struc_enum': EnumDefinition(name='floor_struc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FloorStrucEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'balcony': PermissibleValue(text='balcony', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'floating floor': PermissibleValue(text='floating floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'glass floor': PermissibleValue(text='glass floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'raised floor': PermissibleValue(text='raised floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sprung floor': PermissibleValue(text='sprung floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood-framed': PermissibleValue(text='wood-framed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'concrete': PermissibleValue(text='concrete', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'handidness_enum': EnumDefinition(name='handidness_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HandidnessEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'ambidexterity': PermissibleValue(text='ambidexterity', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'left handedness': PermissibleValue(text='left handedness', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mixed-handedness': PermissibleValue(text='mixed-handedness', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'right handedness': PermissibleValue(text='right handedness', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'wall_surf_treatment_enum': EnumDefinition(name='wall_surf_treatment_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WallSurfTreatmentEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'painted': PermissibleValue(text='painted', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wall paper': PermissibleValue(text='wall paper', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'no treatment': PermissibleValue(text='no treatment', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'paneling': PermissibleValue(text='paneling', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stucco': PermissibleValue(text='stucco', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fabric': PermissibleValue(text='fabric', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'specific_enum': EnumDefinition(name='specific_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SpecificEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'operation': PermissibleValue(text='operation', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'as built': PermissibleValue(text='as built', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'construction': PermissibleValue(text='construction', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bid': PermissibleValue(text='bid', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'design': PermissibleValue(text='design', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'photos': PermissibleValue(text='photos', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_loc_enum': EnumDefinition(name='window_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'building_setting_enum': EnumDefinition(name='building_setting_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BuildingSettingEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'urban': PermissibleValue(text='urban', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'suburban': PermissibleValue(text='suburban', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'exurban': PermissibleValue(text='exurban', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rural': PermissibleValue(text='rural', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_floor_enum': EnumDefinition(name='samp_floor_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampFloorEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'1st floor': PermissibleValue(text='1st floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '2nd floor': PermissibleValue(text='2nd floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'basement': PermissibleValue(text='basement', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lobby': PermissibleValue(text='lobby', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'vis_media_enum': EnumDefinition(name='vis_media_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/VisMediaEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'photos': PermissibleValue(text='photos', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'videos': PermissibleValue(text='videos', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'commonly of the building': PermissibleValue(text='commonly of the building', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'site context (adjacent buildings, vegetation, terrain, streets)': PermissibleValue(text='site context (adjacent buildings, vegetation, terrain, streets)', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'interiors': PermissibleValue(text='interiors', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'equipment': PermissibleValue(text='equipment', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '3D scans': PermissibleValue(text='3D scans', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'indoor_space_enum': EnumDefinition(name='indoor_space_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/IndoorSpaceEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'bedroom': PermissibleValue(text='bedroom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'office': PermissibleValue(text='office', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bathroom': PermissibleValue(text='bathroom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'foyer': PermissibleValue(text='foyer', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'kitchen': PermissibleValue(text='kitchen', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'locker room': PermissibleValue(text='locker room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hallway': PermissibleValue(text='hallway', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'elevator': PermissibleValue(text='elevator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ceil_texture_enum': EnumDefinition(name='ceil_texture_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/CeilTextureEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'crows feet': PermissibleValue(text='crows feet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'crows-foot stomp': PermissibleValue(text='crows-foot stomp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'double skip': PermissibleValue(text='double skip', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hawk and trowel': PermissibleValue(text='hawk and trowel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'knockdown': PermissibleValue(text='knockdown', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'popcorn': PermissibleValue(text='popcorn', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'orange peel': PermissibleValue(text='orange peel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rosebud stomp': PermissibleValue(text='rosebud stomp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Santa-Fe texture': PermissibleValue(text='Santa-Fe texture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'skip trowel': PermissibleValue(text='skip trowel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'smooth': PermissibleValue(text='smooth', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stomp knockdown': PermissibleValue(text='stomp knockdown', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'swirl': PermissibleValue(text='swirl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_move_enum': EnumDefinition(name='door_move_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorMoveEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'collapsible': PermissibleValue(text='collapsible', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'folding': PermissibleValue(text='folding', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'revolving': PermissibleValue(text='revolving', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rolling shutter': PermissibleValue(text='rolling shutter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sliding': PermissibleValue(text='sliding', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'swinging': PermissibleValue(text='swinging', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_comp_type_enum': EnumDefinition(name='door_comp_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorCompTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'metal covered': PermissibleValue(text='metal covered', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'revolving': PermissibleValue(text='revolving', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sliding': PermissibleValue(text='sliding', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'telescopic': PermissibleValue(text='telescopic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'wall_texture_enum': EnumDefinition(name='wall_texture_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WallTextureEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'crows feet': PermissibleValue(text='crows feet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'crows-foot stomp': PermissibleValue(text='crows-foot stomp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), '': PermissibleValue(text='', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'double skip': PermissibleValue(text='double skip', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hawk and trowel': PermissibleValue(text='hawk and trowel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'knockdown': PermissibleValue(text='knockdown', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'popcorn': PermissibleValue(text='popcorn', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'orange peel': PermissibleValue(text='orange peel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rosebud stomp': PermissibleValue(text='rosebud stomp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Santa-Fe texture': PermissibleValue(text='Santa-Fe texture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'skip trowel': PermissibleValue(text='skip trowel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'smooth': PermissibleValue(text='smooth', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stomp knockdown': PermissibleValue(text='stomp knockdown', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'swirl': PermissibleValue(text='swirl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'wall_loc_enum': EnumDefinition(name='wall_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WallLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'floor_water_mold_enum': EnumDefinition(name='floor_water_mold_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FloorWaterMoldEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'mold odor': PermissibleValue(text='mold odor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wet floor': PermissibleValue(text='wet floor', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'water stains': PermissibleValue(text='water stains', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wall discoloration': PermissibleValue(text='wall discoloration', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'floor discoloration': PermissibleValue(text='floor discoloration', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ceiling discoloration': PermissibleValue(text='ceiling discoloration', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'peeling paint or wallpaper': PermissibleValue(text='peeling paint or wallpaper', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bulging walls': PermissibleValue(text='bulging walls', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'condensation': PermissibleValue(text='condensation', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_type_enum': EnumDefinition(name='door_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'composite': PermissibleValue(text='composite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wooden': PermissibleValue(text='wooden', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_cond_enum': EnumDefinition(name='window_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'water_feat_type_enum': EnumDefinition(name='water_feat_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WaterFeatTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'fountain': PermissibleValue(text='fountain', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'pool': PermissibleValue(text='pool', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'standing feature': PermissibleValue(text='standing feature', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stream': PermissibleValue(text='stream', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'waterfall': PermissibleValue(text='waterfall', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'floor_cond_enum': EnumDefinition(name='floor_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FloorCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'indoor_surf_enum': EnumDefinition(name='indoor_surf_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/IndoorSurfEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'cabinet': PermissibleValue(text='cabinet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ceiling': PermissibleValue(text='ceiling', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'counter top': PermissibleValue(text='counter top', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'door': PermissibleValue(text='door', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shelving': PermissibleValue(text='shelving', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vent cover': PermissibleValue(text='vent cover', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'window': PermissibleValue(text='window', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wall': PermissibleValue(text='wall', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ext_wall_orient_enum': EnumDefinition(name='ext_wall_orient_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ExtWallOrientEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northeast': PermissibleValue(text='northeast', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southeast': PermissibleValue(text='southeast', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southwest': PermissibleValue(text='southwest', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northwest': PermissibleValue(text='northwest', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'build_occup_type_enum': EnumDefinition(name='build_occup_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BuildOccupTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'office': PermissibleValue(text='office', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'market': PermissibleValue(text='market', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'restaurant': PermissibleValue(text='restaurant', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'residence': PermissibleValue(text='residence', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'school': PermissibleValue(text='school', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'residential': PermissibleValue(text='residential', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'commercial': PermissibleValue(text='commercial', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'low rise': PermissibleValue(text='low rise', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'high rise': PermissibleValue(text='high rise', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood framed': PermissibleValue(text='wood framed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'health care': PermissibleValue(text='health care', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'airport': PermissibleValue(text='airport', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sports complex': PermissibleValue(text='sports complex', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_mat_enum': EnumDefinition(name='door_mat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorMatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'aluminum': PermissibleValue(text='aluminum', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cellular PVC': PermissibleValue(text='cellular PVC', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'engineered plastic': PermissibleValue(text='engineered plastic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fiberboard': PermissibleValue(text='fiberboard', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fiberglass': PermissibleValue(text='fiberglass', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'thermoplastic alloy': PermissibleValue(text='thermoplastic alloy', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vinyl': PermissibleValue(text='vinyl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood': PermissibleValue(text='wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood/plastic composite': PermissibleValue(text='wood/plastic composite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_loc_enum': EnumDefinition(name='door_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'mech_struc_enum': EnumDefinition(name='mech_struc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/MechStrucEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'subway': PermissibleValue(text='subway', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'coach': PermissibleValue(text='coach', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'carriage': PermissibleValue(text='carriage', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'elevator': PermissibleValue(text='elevator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'escalator': PermissibleValue(text='escalator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'boat': PermissibleValue(text='boat', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'train': PermissibleValue(text='train', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'car': PermissibleValue(text='car', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bus': PermissibleValue(text='bus', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'surf_air_cont_enum': EnumDefinition(name='surf_air_cont_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SurfAirContEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'dust': PermissibleValue(text='dust', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'organic matter': PermissibleValue(text='organic matter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'particulate matter': PermissibleValue(text='particulate matter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'volatile organic compounds': PermissibleValue(text='volatile organic compounds', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'biological contaminants': PermissibleValue(text='biological contaminants', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'radon': PermissibleValue(text='radon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'nutrients': PermissibleValue(text='nutrients', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'biocides': PermissibleValue(text='biocides', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'shading_device_type_enum': EnumDefinition(name='shading_device_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ShadingDeviceTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'bahama shutters': PermissibleValue(text='bahama shutters', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'exterior roll blind': PermissibleValue(text='exterior roll blind', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gambrel awning': PermissibleValue(text='gambrel awning', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hood awning': PermissibleValue(text='hood awning', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'porchroller awning': PermissibleValue(text='porchroller awning', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sarasota shutters': PermissibleValue(text='sarasota shutters', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'slatted aluminum': PermissibleValue(text='slatted aluminum', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'solid aluminum awning': PermissibleValue(text='solid aluminum awning', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sun screen': PermissibleValue(text='sun screen', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tree': PermissibleValue(text='tree', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'trellis': PermissibleValue(text='trellis', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'venetian awning': PermissibleValue(text='venetian awning', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'room_loc_enum': EnumDefinition(name='room_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RoomLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'corner room': PermissibleValue(text='corner room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'interior room': PermissibleValue(text='interior room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'exterior wall': PermissibleValue(text='exterior wall', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'room_condt_enum': EnumDefinition(name='room_condt_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RoomCondtEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible signs of mold/mildew': PermissibleValue(text='visible signs of mold/mildew', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'surf_material_enum': EnumDefinition(name='surf_material_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SurfMaterialEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'adobe': PermissibleValue(text='adobe', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'carpet': PermissibleValue(text='carpet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cinder blocks': PermissibleValue(text='cinder blocks', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'concrete': PermissibleValue(text='concrete', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hay bales': PermissibleValue(text='hay bales', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'glass': PermissibleValue(text='glass', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'paint': PermissibleValue(text='paint', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'plastic': PermissibleValue(text='plastic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stainless steel': PermissibleValue(text='stainless steel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stone': PermissibleValue(text='stone', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stucco': PermissibleValue(text='stucco', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tile': PermissibleValue(text='tile', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vinyl': PermissibleValue(text='vinyl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood': PermissibleValue(text='wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ceil_finish_mat_enum': EnumDefinition(name='ceil_finish_mat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/CeilFinishMatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'drywall': PermissibleValue(text='drywall', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mineral fibre': PermissibleValue(text='mineral fibre', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tiles': PermissibleValue(text='tiles', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'PVC': PermissibleValue(text='PVC', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'plasterboard': PermissibleValue(text='plasterboard', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fiberglass': PermissibleValue(text='fiberglass', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stucco': PermissibleValue(text='stucco', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mineral wool/calcium silicate': PermissibleValue(text='mineral wool/calcium silicate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood': PermissibleValue(text='wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_type_wood_enum': EnumDefinition(name='door_type_wood_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorTypeWoodEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'bettened and ledged': PermissibleValue(text='bettened and ledged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'battened': PermissibleValue(text='battened', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ledged and braced': PermissibleValue(text='ledged and braced', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ledged and framed': PermissibleValue(text='ledged and framed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ledged, braced and frame': PermissibleValue(text='ledged, braced and frame', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'framed and paneled': PermissibleValue(text='framed and paneled', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'glashed or sash': PermissibleValue(text='glashed or sash', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'flush': PermissibleValue(text='flush', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'louvered': PermissibleValue(text='louvered', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wire gauged': PermissibleValue(text='wire gauged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'heat_deliv_loc_enum': EnumDefinition(name='heat_deliv_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HeatDelivLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north': PermissibleValue(text='north', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south': PermissibleValue(text='south', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east': PermissibleValue(text='east', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west': PermissibleValue(text='west', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'train_stat_loc_enum': EnumDefinition(name='train_stat_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/TrainStatLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'south station above ground': PermissibleValue(text='south station above ground', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south station underground': PermissibleValue(text='south station underground', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south station amtrak': PermissibleValue(text='south station amtrak', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'forest hills': PermissibleValue(text='forest hills', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'riverside': PermissibleValue(text='riverside', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'floor_finish_mat_enum': EnumDefinition(name='floor_finish_mat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FloorFinishMatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'tile': PermissibleValue(text='tile', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood strip or parquet': PermissibleValue(text='wood strip or parquet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'carpet': PermissibleValue(text='carpet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rug': PermissibleValue(text='rug', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'laminate wood': PermissibleValue(text='laminate wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lineoleum': PermissibleValue(text='lineoleum', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vinyl composition tile': PermissibleValue(text='vinyl composition tile', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sheet vinyl': PermissibleValue(text='sheet vinyl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stone': PermissibleValue(text='stone', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bamboo': PermissibleValue(text='bamboo', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cork': PermissibleValue(text='cork', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'terrazo': PermissibleValue(text='terrazo', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'concrete': PermissibleValue(text='concrete', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'none': PermissibleValue(text='none', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sealed': PermissibleValue(text='sealed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'clear finish': PermissibleValue(text='clear finish', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'paint': PermissibleValue(text='paint', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'none or unfinished': PermissibleValue(text='none or unfinished', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_type_enum': EnumDefinition(name='window_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'single-hung sash window': PermissibleValue(text='single-hung sash window', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'horizontal sash window': PermissibleValue(text='horizontal sash window', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fixed window': PermissibleValue(text='fixed window', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'drawings_enum': EnumDefinition(name='drawings_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DrawingsEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'operation': PermissibleValue(text='operation', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'as built': PermissibleValue(text='as built', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'construction': PermissibleValue(text='construction', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bid': PermissibleValue(text='bid', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'design': PermissibleValue(text='design', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'building navigation map': PermissibleValue(text='building navigation map', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'diagram': PermissibleValue(text='diagram', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sketch': PermissibleValue(text='sketch', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'wall_const_type_enum': EnumDefinition(name='wall_const_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WallConstTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'frame construction': PermissibleValue(text='frame construction', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'joisted masonry': PermissibleValue(text='joisted masonry', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'light noncombustible': PermissibleValue(text='light noncombustible', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'masonry noncombustible': PermissibleValue(text='masonry noncombustible', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'modified fire resistive': PermissibleValue(text='modified fire resistive', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'fire resistive': PermissibleValue(text='fire resistive', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'wall_finish_mat_enum': EnumDefinition(name='wall_finish_mat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WallFinishMatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'plaster': PermissibleValue(text='plaster', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gypsum plaster': PermissibleValue(text='gypsum plaster', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'veneer plaster': PermissibleValue(text='veneer plaster', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gypsum board': PermissibleValue(text='gypsum board', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tile': PermissibleValue(text='tile', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'terrazzo': PermissibleValue(text='terrazzo', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stone facing': PermissibleValue(text='stone facing', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'acoustical treatment': PermissibleValue(text='acoustical treatment', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood': PermissibleValue(text='wood', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metal': PermissibleValue(text='metal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'masonry': PermissibleValue(text='masonry', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'heat_cool_type_enum': EnumDefinition(name='heat_cool_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HeatCoolTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'radiant system': PermissibleValue(text='radiant system', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'heat pump': PermissibleValue(text='heat pump', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'forced air system': PermissibleValue(text='forced air system', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'steam forced heat': PermissibleValue(text='steam forced heat', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wood stove': PermissibleValue(text='wood stove', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'window_vert_pos_enum': EnumDefinition(name='window_vert_pos_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/WindowVertPosEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'bottom': PermissibleValue(text='bottom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'middle': PermissibleValue(text='middle', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'top': PermissibleValue(text='top', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'low': PermissibleValue(text='low', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'high': PermissibleValue(text='high', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ceil_cond_enum': EnumDefinition(name='ceil_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/CeilCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_cond_enum': EnumDefinition(name='door_cond_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorCondEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'damaged': PermissibleValue(text='damaged', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'needs repair': PermissibleValue(text='needs repair', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'new': PermissibleValue(text='new', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rupture': PermissibleValue(text='rupture', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'visible wear': PermissibleValue(text='visible wear', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'rel_samp_loc_enum': EnumDefinition(name='rel_samp_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RelSampLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'edge of car': PermissibleValue(text='edge of car', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'center of car': PermissibleValue(text='center of car', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'under a seat': PermissibleValue(text='under a seat', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'room_connected_enum': EnumDefinition(name='room_connected_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RoomConnectedEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'attic': PermissibleValue(text='attic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bathroom': PermissibleValue(text='bathroom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'closet': PermissibleValue(text='closet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'conference room': PermissibleValue(text='conference room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'elevator': PermissibleValue(text='elevator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'examining room': PermissibleValue(text='examining room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hallway': PermissibleValue(text='hallway', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'kitchen': PermissibleValue(text='kitchen', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mail room': PermissibleValue(text='mail room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'office': PermissibleValue(text='office', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stairwell': PermissibleValue(text='stairwell', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'train_stop_loc_enum': EnumDefinition(name='train_stop_loc_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/TrainStopLocEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'end': PermissibleValue(text='end', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mid': PermissibleValue(text='mid', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'downtown': PermissibleValue(text='downtown', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'quad_pos_enum': EnumDefinition(name='quad_pos_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/QuadPosEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'North side': PermissibleValue(text='North side', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'West side': PermissibleValue(text='West side', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'South side': PermissibleValue(text='South side', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'East side': PermissibleValue(text='East side', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'ceil_type_enum': EnumDefinition(name='ceil_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/CeilTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'cathedral': PermissibleValue(text='cathedral', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'dropped': PermissibleValue(text='dropped', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'concave': PermissibleValue(text='concave', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'barrel-shaped': PermissibleValue(text='barrel-shaped', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'coffered': PermissibleValue(text='coffered', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cove': PermissibleValue(text='cove', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stretched': PermissibleValue(text='stretched', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'build_docs_enum': EnumDefinition(name='build_docs_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BuildDocsEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'building information model': PermissibleValue(text='building information model', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'commissioning report': PermissibleValue(text='commissioning report', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'complaint logs': PermissibleValue(text='complaint logs', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'contract administration': PermissibleValue(text='contract administration', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cost estimate': PermissibleValue(text='cost estimate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'janitorial schedules or logs': PermissibleValue(text='janitorial schedules or logs', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'maintenance plans': PermissibleValue(text='maintenance plans', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'schedule': PermissibleValue(text='schedule', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sections': PermissibleValue(text='sections', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shop drawings': PermissibleValue(text='shop drawings', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'submittals': PermissibleValue(text='submittals', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ventilation system': PermissibleValue(text='ventilation system', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'windows': PermissibleValue(text='windows', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'room_type_enum': EnumDefinition(name='room_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RoomTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'attic': PermissibleValue(text='attic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'bathroom': PermissibleValue(text='bathroom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'closet': PermissibleValue(text='closet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'conference room': PermissibleValue(text='conference room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'elevator': PermissibleValue(text='elevator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'examining room': PermissibleValue(text='examining room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hallway': PermissibleValue(text='hallway', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'kitchen': PermissibleValue(text='kitchen', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mail room': PermissibleValue(text='mail room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'private office': PermissibleValue(text='private office', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'open office': PermissibleValue(text='open office', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'stairwell': PermissibleValue(text='stairwell', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), ',restroom': PermissibleValue(text=',restroom', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lobby': PermissibleValue(text='lobby', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vestibule': PermissibleValue(text='vestibule', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mechanical or electrical room': PermissibleValue(text='mechanical or electrical room', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'data center': PermissibleValue(text='data center', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'laboratory_wet': PermissibleValue(text='laboratory_wet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'laboratory_dry': PermissibleValue(text='laboratory_dry', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gymnasium': PermissibleValue(text='gymnasium', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'natatorium': PermissibleValue(text='natatorium', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'auditorium': PermissibleValue(text='auditorium', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lockers': PermissibleValue(text='lockers', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cafe': PermissibleValue(text='cafe', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'warehouse': PermissibleValue(text='warehouse', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'season_use_enum': EnumDefinition(name='season_use_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SeasonUseEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Spring': PermissibleValue(text='Spring', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Summer': PermissibleValue(text='Summer', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Fall': PermissibleValue(text='Fall', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Winter': PermissibleValue(text='Winter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'door_type_metal_enum': EnumDefinition(name='door_type_metal_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DoorTypeMetalEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'collapsible': PermissibleValue(text='collapsible', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'corrugated steel': PermissibleValue(text='corrugated steel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hollow': PermissibleValue(text='hollow', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rolling shutters': PermissibleValue(text='rolling shutters', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'steel plate': PermissibleValue(text='steel plate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'room_samp_pos_enum': EnumDefinition(name='room_samp_pos_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RoomSampPosEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'north corner': PermissibleValue(text='north corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'south corner': PermissibleValue(text='south corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'west corner': PermissibleValue(text='west corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'east corner': PermissibleValue(text='east corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northeast corner': PermissibleValue(text='northeast corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'northwest corner': PermissibleValue(text='northwest corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southeast corner': PermissibleValue(text='southeast corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'southwest corner': PermissibleValue(text='southwest corner', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'center': PermissibleValue(text='center', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_weather_enum': EnumDefinition(name='samp_weather_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampWeatherEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'clear sky': PermissibleValue(text='clear sky', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cloudy': PermissibleValue(text='cloudy', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'foggy': PermissibleValue(text='foggy', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hail': PermissibleValue(text='hail', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rain': PermissibleValue(text='rain', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'snow': PermissibleValue(text='snow', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sleet': PermissibleValue(text='sleet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sunny': PermissibleValue(text='sunny', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'windy': PermissibleValue(text='windy', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'gender_restroom_enum': EnumDefinition(name='gender_restroom_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/GenderRestroomEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'all gender': PermissibleValue(text='all gender', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'female': PermissibleValue(text='female', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gender neurtral': PermissibleValue(text='gender neurtral', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'male': PermissibleValue(text='male', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'male and female': PermissibleValue(text='male and female', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'unisex': PermissibleValue(text='unisex', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'hc_produced_enum': EnumDefinition(name='hc_produced_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HcProducedEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Oil': PermissibleValue(text='Oil', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gas-Condensate': PermissibleValue(text='Gas-Condensate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gas': PermissibleValue(text='Gas', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Bitumen': PermissibleValue(text='Bitumen', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Coalbed Methane': PermissibleValue(text='Coalbed Methane', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'hcr_enum': EnumDefinition(name='hcr_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HcrEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Oil Reservoir': PermissibleValue(text='Oil Reservoir', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gas Reservoir': PermissibleValue(text='Gas Reservoir', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Oil Sand': PermissibleValue(text='Oil Sand', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Coalbed': PermissibleValue(text='Coalbed', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Shale': PermissibleValue(text='Shale', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Tight Oil Reservoir': PermissibleValue(text='Tight Oil Reservoir', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Tight Gas Reservoir': PermissibleValue(text='Tight Gas Reservoir', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'lithology_enum': EnumDefinition(name='lithology_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/LithologyEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Basement': PermissibleValue(text='Basement', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Chalk': PermissibleValue(text='Chalk', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Chert': PermissibleValue(text='Chert', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Coal': PermissibleValue(text='Coal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Conglomerate': PermissibleValue(text='Conglomerate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Diatomite': PermissibleValue(text='Diatomite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Dolomite': PermissibleValue(text='Dolomite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Limestone': PermissibleValue(text='Limestone', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Sandstone': PermissibleValue(text='Sandstone', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Shale': PermissibleValue(text='Shale', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Siltstone': PermissibleValue(text='Siltstone', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Volcanic': PermissibleValue(text='Volcanic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_collect_point_enum': EnumDefinition(name='samp_collect_point_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampCollectPointEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'well': PermissibleValue(text='well', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'test well': PermissibleValue(text='test well', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'drilling rig': PermissibleValue(text='drilling rig', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'wellhead': PermissibleValue(text='wellhead', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'separator': PermissibleValue(text='separator', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'storage tank': PermissibleValue(text='storage tank', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'oxy_stat_samp_enum': EnumDefinition(name='oxy_stat_samp_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/OxyStatSampEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'aerobic': PermissibleValue(text='aerobic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'anaerobic': PermissibleValue(text='anaerobic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'depos_env_enum': EnumDefinition(name='depos_env_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DeposEnvEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Continental - Alluvial': PermissibleValue(text='Continental - Alluvial', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Continental - Aeolian': PermissibleValue(text='Continental - Aeolian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Continental - Fluvial': PermissibleValue(text='Continental - Fluvial', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Continental - Lacustrine': PermissibleValue(text='Continental - Lacustrine', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Transitional - Deltaic': PermissibleValue(text='Transitional - Deltaic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Transitional - Tidal': PermissibleValue(text='Transitional - Tidal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Transitional - Lagoonal': PermissibleValue(text='Transitional - Lagoonal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Transitional - Beach': PermissibleValue(text='Transitional - Beach', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Transitional - Lake': PermissibleValue(text='Transitional - Lake', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Marine - Shallow': PermissibleValue(text='Marine - Shallow', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Marine - Deep': PermissibleValue(text='Marine - Deep', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Marine - Reef': PermissibleValue(text='Marine - Reef', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Other - Evaporite': PermissibleValue(text='Other - Evaporite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Other - Glacial': PermissibleValue(text='Other - Glacial', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Other - Volcanic': PermissibleValue(text='Other - Volcanic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'hcr_geol_age_enum': EnumDefinition(name='hcr_geol_age_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HcrGeolAgeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Archean': PermissibleValue(text='Archean', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cambrian': PermissibleValue(text='Cambrian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Carboniferous': PermissibleValue(text='Carboniferous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cenozoic': PermissibleValue(text='Cenozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cretaceous': PermissibleValue(text='Cretaceous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Devonian': PermissibleValue(text='Devonian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Jurassic': PermissibleValue(text='Jurassic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Mesozoic': PermissibleValue(text='Mesozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Neogene': PermissibleValue(text='Neogene', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ordovician': PermissibleValue(text='Ordovician', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Paleogene': PermissibleValue(text='Paleogene', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Paleozoic': PermissibleValue(text='Paleozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Permian': PermissibleValue(text='Permian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Precambrian': PermissibleValue(text='Precambrian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Proterozoic': PermissibleValue(text='Proterozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Silurian': PermissibleValue(text='Silurian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Triassic': PermissibleValue(text='Triassic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_subtype_enum': EnumDefinition(name='samp_subtype_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampSubtypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'oil phase': PermissibleValue(text='oil phase', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'water phase': PermissibleValue(text='water phase', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'biofilm': PermissibleValue(text='biofilm', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'not applicable': PermissibleValue(text='not applicable', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sr_lithology_enum': EnumDefinition(name='sr_lithology_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SrLithologyEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Clastic': PermissibleValue(text='Clastic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Carbonate': PermissibleValue(text='Carbonate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Coal': PermissibleValue(text='Coal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Biosilicieous': PermissibleValue(text='Biosilicieous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sr_kerog_type_enum': EnumDefinition(name='sr_kerog_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SrKerogTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Type I': PermissibleValue(text='Type I', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Type II': PermissibleValue(text='Type II', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Type III': PermissibleValue(text='Type III', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Type IV': PermissibleValue(text='Type IV', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sr_dep_env_enum': EnumDefinition(name='sr_dep_env_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SrDepEnvEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Lacustine': PermissibleValue(text='Lacustine', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Fluvioldeltaic': PermissibleValue(text='Fluvioldeltaic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Fluviomarine': PermissibleValue(text='Fluviomarine', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Marine': PermissibleValue(text='Marine', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sr_geol_age_enum': EnumDefinition(name='sr_geol_age_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SrGeolAgeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Archean': PermissibleValue(text='Archean', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cambrian': PermissibleValue(text='Cambrian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Carboniferous': PermissibleValue(text='Carboniferous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cenozoic': PermissibleValue(text='Cenozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cretaceous': PermissibleValue(text='Cretaceous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Devonian': PermissibleValue(text='Devonian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Jurassic': PermissibleValue(text='Jurassic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Mesozoic': PermissibleValue(text='Mesozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Neogene': PermissibleValue(text='Neogene', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ordovician': PermissibleValue(text='Ordovician', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Paleogene': PermissibleValue(text='Paleogene', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Paleozoic': PermissibleValue(text='Paleozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Permian': PermissibleValue(text='Permian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Precambrian': PermissibleValue(text='Precambrian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Proterozoic': PermissibleValue(text='Proterozoic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Silurian': PermissibleValue(text='Silurian', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Triassic': PermissibleValue(text='Triassic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'biotic_relationship_enum': EnumDefinition(name='biotic_relationship_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BioticRelationshipEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'free living': PermissibleValue(text='free living', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'parasite': PermissibleValue(text='parasite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'commensal': PermissibleValue(text='commensal', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'symbiont': PermissibleValue(text='symbiont', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'fao_class_enum': EnumDefinition(name='fao_class_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/FaoClassEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Acrisols': PermissibleValue(text='Acrisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Andosols': PermissibleValue(text='Andosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Arenosols': PermissibleValue(text='Arenosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Cambisols': PermissibleValue(text='Cambisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Chernozems': PermissibleValue(text='Chernozems', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ferralsols': PermissibleValue(text='Ferralsols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Fluvisols': PermissibleValue(text='Fluvisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gleysols': PermissibleValue(text='Gleysols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Greyzems': PermissibleValue(text='Greyzems', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gypsisols': PermissibleValue(text='Gypsisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Histosols': PermissibleValue(text='Histosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Kastanozems': PermissibleValue(text='Kastanozems', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Lithosols': PermissibleValue(text='Lithosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Luvisols': PermissibleValue(text='Luvisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Nitosols': PermissibleValue(text='Nitosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Phaeozems': PermissibleValue(text='Phaeozems', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Planosols': PermissibleValue(text='Planosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Podzols': PermissibleValue(text='Podzols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Podzoluvisols': PermissibleValue(text='Podzoluvisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Rankers': PermissibleValue(text='Rankers', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Regosols': PermissibleValue(text='Regosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Rendzinas': PermissibleValue(text='Rendzinas', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Solonchaks': PermissibleValue(text='Solonchaks', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Solonetz': PermissibleValue(text='Solonetz', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Vertisols': PermissibleValue(text='Vertisols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Yermosols': PermissibleValue(text='Yermosols', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'cur_land_use_enum': EnumDefinition(name='cur_land_use_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/CurLandUseEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'badlands': PermissibleValue(text='badlands', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cities': PermissibleValue(text='cities', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'conifers': PermissibleValue(text='conifers', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='conifers (e.g. pine,spruce,fir,cypress)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='cypress', description=None, object=None), Example(value='fir', description=None, object=None), Example(value='pine', description=None, object=None), Example(value='spruce', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'crop trees': PermissibleValue(text='crop trees', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='crop trees (nuts,fruit,christmas trees,nursery trees)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='christmas trees', description=None, object=None), Example(value='fruit', description=None, object=None), Example(value='nursery trees', description=None, object=None), Example(value='nuts', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'farmstead': PermissibleValue(text='farmstead', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'gravel': PermissibleValue(text='gravel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hardwoods': PermissibleValue(text='hardwoods', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='hardwoods (e.g. oak,hickory,elm,aspen)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='aspen', description=None, object=None), Example(value='elm', description=None, object=None), Example(value='hickory', description=None, object=None), Example(value='oak', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hayland': PermissibleValue(text='hayland', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'horticultural plants': PermissibleValue(text='horticultural plants', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='horticultural plants (e.g. tulips)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='tulips', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'industrial areas': PermissibleValue(text='industrial areas', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'intermixed hardwood and conifers': PermissibleValue(text='intermixed hardwood and conifers', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'marshlands': PermissibleValue(text='marshlands', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='marshlands (grass,sedges,rushes)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='grass', description=None, object=None), Example(value='rushes', description=None, object=None), Example(value='sedgees', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'meadows': PermissibleValue(text='meadows', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='meadows (grasses,alfalfa,fescue,bromegrass,timothy)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='alfalfa', description=None, object=None), Example(value='bromegrass', description=None, object=None), Example(value='fescue', description=None, object=None), Example(value='grasses', description=None, object=None), Example(value='timothy', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mines/quarries': PermissibleValue(text='mines/quarries', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mudflats': PermissibleValue(text='mudflats', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'oil waste areas': PermissibleValue(text='oil waste areas', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'pastureland': PermissibleValue(text='pastureland', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='pastureland (grasslands used for livestock grazing)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['grasslands used for livestock grazing'], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'permanent snow or ice': PermissibleValue(text='permanent snow or ice', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rainforest': PermissibleValue(text='rainforest', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='rainforest (evergreen forest receiving greater than 406 cm annual rainfall)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['evergreen forest receiving greater than 406 cm annual rainfall'], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rangeland': PermissibleValue(text='rangeland', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'roads/railroads': PermissibleValue(text='roads/railroads', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'rock': PermissibleValue(text='rock', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'row crops': PermissibleValue(text='row crops', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'saline seeps': PermissibleValue(text='saline seeps', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'salt flats': PermissibleValue(text='salt flats', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'sand': PermissibleValue(text='sand', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shrub crops': PermissibleValue(text='shrub crops', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='shrub crops (blueberries,nursery ornamentals,filberts)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='blueberries', description=None, object=None), Example(value='filberts', description=None, object=None), Example(value='nursery ornamentals', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shrub land': PermissibleValue(text='shrub land', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='shrub land (e.g. mesquite,sage-brush,creosote bush,shrub oak,eucalyptus)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='creosote bush', description=None, object=None), Example(value='eucalyptus', description=None, object=None), Example(value='mesquite', description=None, object=None), Example(value='sage-brush', description=None, object=None), Example(value='shrub oak', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'small grains': PermissibleValue(text='small grains', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'successional shrub land': PermissibleValue(text='successional shrub land', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='successional shrub land (tree saplings,hazels,sumacs,chokecherry,shrub dogwoods,blackberries)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='blackberries', description=None, object=None), Example(value='chokecherry', description=None, object=None), Example(value='hazels', description=None, object=None), Example(value='shrub dogwoods', description=None, object=None), Example(value='sumacs', description=None, object=None), Example(value='tree saplings', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'swamp': PermissibleValue(text='swamp', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='swamp (permanent or semi-permanent water body dominated by woody plants)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['permanent or semi-permanent water body dominated by woody plants'], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tropical': PermissibleValue(text='tropical', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='tropical (e.g. mangrove,palms)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='mangrove', description=None, object=None), Example(value='palms', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tundra': PermissibleValue(text='tundra', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='tundra (mosses,lichens)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='lichens', description=None, object=None), Example(value='mosses', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vegetable crops': PermissibleValue(text='vegetable crops', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'vine crops': PermissibleValue(text='vine crops', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={'originally': Annotation(tag='originally', value='vine crops (grapes)', extensions={}, annotations={})}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[Example(value='grapes', description=None, object=None)], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'soil_horizon_enum': EnumDefinition(name='soil_horizon_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SoilHorizonEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'O horizon': PermissibleValue(text='O horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'A horizon': PermissibleValue(text='A horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'E horizon': PermissibleValue(text='E horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'B horizon': PermissibleValue(text='B horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'C horizon': PermissibleValue(text='C horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'R layer': PermissibleValue(text='R layer', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Permafrost': PermissibleValue(text='Permafrost', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'M horizon': PermissibleValue(text='M horizon', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'profile_position_enum': EnumDefinition(name='profile_position_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/ProfilePositionEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'summit': PermissibleValue(text='summit', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'shoulder': PermissibleValue(text='shoulder', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'backslope': PermissibleValue(text='backslope', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'footslope': PermissibleValue(text='footslope', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'toeslope': PermissibleValue(text='toeslope', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'tillage_enum': EnumDefinition(name='tillage_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/TillageEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'drill': PermissibleValue(text='drill', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cutting disc': PermissibleValue(text='cutting disc', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ridge till': PermissibleValue(text='ridge till', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'strip tillage': PermissibleValue(text='strip tillage', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'zonal tillage': PermissibleValue(text='zonal tillage', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'chisel': PermissibleValue(text='chisel', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'tined': PermissibleValue(text='tined', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mouldboard': PermissibleValue(text='mouldboard', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'disc plough': PermissibleValue(text='disc plough', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'drainage_class_enum': EnumDefinition(name='drainage_class_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DrainageClassEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'very poorly': PermissibleValue(text='very poorly', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'poorly': PermissibleValue(text='poorly', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'somewhat poorly': PermissibleValue(text='somewhat poorly', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'moderately well': PermissibleValue(text='moderately well', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'well': PermissibleValue(text='well', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'excessively drained': PermissibleValue(text='excessively drained', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_capt_status_enum': EnumDefinition(name='samp_capt_status_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampCaptStatusEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'active surveillance in response to an outbreak': PermissibleValue(text='active surveillance in response to an outbreak', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'active surveillance not initiated by an outbreak': PermissibleValue(text='active surveillance not initiated by an outbreak', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'farm sample': PermissibleValue(text='farm sample', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'market sample': PermissibleValue(text='market sample', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'samp_dis_stage_enum': EnumDefinition(name='samp_dis_stage_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampDisStageEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'dissemination': PermissibleValue(text='dissemination', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'growth and reproduction': PermissibleValue(text='growth and reproduction', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'infection': PermissibleValue(text='infection', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'inoculation': PermissibleValue(text='inoculation', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'penetration': PermissibleValue(text='penetration', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'other': PermissibleValue(text='other', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'biol_stat_enum': EnumDefinition(name='biol_stat_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/BiolStatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'wild': PermissibleValue(text='wild', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'natural': PermissibleValue(text='natural', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'semi-natural': PermissibleValue(text='semi-natural', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'inbred line': PermissibleValue(text='inbred line', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), \"breeder's line\": PermissibleValue(text=\"breeder's line\", description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hybrid': PermissibleValue(text='hybrid', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'clonal selection': PermissibleValue(text='clonal selection', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'mutant': PermissibleValue(text='mutant', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'growth_habit_enum': EnumDefinition(name='growth_habit_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/GrowthHabitEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'erect': PermissibleValue(text='erect', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'semi-erect': PermissibleValue(text='semi-erect', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'spreading': PermissibleValue(text='spreading', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'prostrate': PermissibleValue(text='prostrate', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'plant_sex_enum': EnumDefinition(name='plant_sex_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/PlantSexEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'Androdioecious': PermissibleValue(text='Androdioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Androecious': PermissibleValue(text='Androecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Androgynous': PermissibleValue(text='Androgynous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Androgynomonoecious': PermissibleValue(text='Androgynomonoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Andromonoecious': PermissibleValue(text='Andromonoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Bisexual': PermissibleValue(text='Bisexual', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Dichogamous': PermissibleValue(text='Dichogamous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Diclinous': PermissibleValue(text='Diclinous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Dioecious': PermissibleValue(text='Dioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gynodioecious': PermissibleValue(text='Gynodioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gynoecious': PermissibleValue(text='Gynoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gynomonoecious': PermissibleValue(text='Gynomonoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Hermaphroditic': PermissibleValue(text='Hermaphroditic', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Imperfect': PermissibleValue(text='Imperfect', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Monoclinous': PermissibleValue(text='Monoclinous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Monoecious': PermissibleValue(text='Monoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Perfect': PermissibleValue(text='Perfect', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Polygamodioecious': PermissibleValue(text='Polygamodioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Polygamomonoecious': PermissibleValue(text='Polygamomonoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Polygamous': PermissibleValue(text='Polygamous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Protandrous': PermissibleValue(text='Protandrous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Protogynous': PermissibleValue(text='Protogynous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Subandroecious': PermissibleValue(text='Subandroecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Subdioecious': PermissibleValue(text='Subdioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Subgynoecious': PermissibleValue(text='Subgynoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Synoecious': PermissibleValue(text='Synoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Trimonoecious': PermissibleValue(text='Trimonoecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Trioecious': PermissibleValue(text='Trioecious', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Unisexual': PermissibleValue(text='Unisexual', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sediment_type_enum': EnumDefinition(name='sediment_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SedimentTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'biogenous': PermissibleValue(text='biogenous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'cosmogenous': PermissibleValue(text='cosmogenous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hydrogenous': PermissibleValue(text='hydrogenous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'lithogenous': PermissibleValue(text='lithogenous', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'tidal_stage_enum': EnumDefinition(name='tidal_stage_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/TidalStageEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'low tide': PermissibleValue(text='low tide', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'ebb tide': PermissibleValue(text='ebb tide', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'flood tide': PermissibleValue(text='flood tide', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'high tide': PermissibleValue(text='high tide', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'host_sex_enum': EnumDefinition(name='host_sex_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/HostSexEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'female': PermissibleValue(text='female', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'hermaphrodite': PermissibleValue(text='hermaphrodite', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'male': PermissibleValue(text='male', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'neuter': PermissibleValue(text='neuter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'analysis_type_enum': EnumDefinition(name='analysis_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/AnalysisTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'metabolomics': PermissibleValue(text='metabolomics', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metagenomics': PermissibleValue(text='metagenomics', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metaproteomics': PermissibleValue(text='metaproteomics', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'metatranscriptomics': PermissibleValue(text='metatranscriptomics', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'natural organic matter': PermissibleValue(text='natural organic matter', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'dna_sample_format_enum': EnumDefinition(name='dna_sample_format_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DnaSampleFormatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'10 mM Tris-HCl': PermissibleValue(text='10 mM Tris-HCl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'DNAStable': PermissibleValue(text='DNAStable', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ethanol': PermissibleValue(text='Ethanol', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Low EDTA TE': PermissibleValue(text='Low EDTA TE', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'MDA reaction buffer': PermissibleValue(text='MDA reaction buffer', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'PBS': PermissibleValue(text='PBS', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Pellet': PermissibleValue(text='Pellet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'RNAStable': PermissibleValue(text='RNAStable', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'TE': PermissibleValue(text='TE', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Water': PermissibleValue(text='Water', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gentegra-DNA': PermissibleValue(text='Gentegra-DNA', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gentegra-RNA': PermissibleValue(text='Gentegra-RNA', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'rna_sample_format_enum': EnumDefinition(name='rna_sample_format_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/RnaSampleFormatEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'10 mM Tris-HCl': PermissibleValue(text='10 mM Tris-HCl', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'DNAStable': PermissibleValue(text='DNAStable', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Ethanol': PermissibleValue(text='Ethanol', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Low EDTA TE': PermissibleValue(text='Low EDTA TE', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'MDA reaction buffer': PermissibleValue(text='MDA reaction buffer', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'PBS': PermissibleValue(text='PBS', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Pellet': PermissibleValue(text='Pellet', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'RNAStable': PermissibleValue(text='RNAStable', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'TE': PermissibleValue(text='TE', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Water': PermissibleValue(text='Water', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gentegra-DNA': PermissibleValue(text='Gentegra-DNA', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'Gentegra-RNA': PermissibleValue(text='Gentegra-RNA', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[]), 'sample_type_enum': EnumDefinition(name='sample_type_enum', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/SampleTypeEnum', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description=None, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, is_a=None, abstract=None, mixin=None, mixins=[], apply_to=[], values_from=[], string_serialization=None, enum_uri=None, code_set=None, code_set_tag=None, code_set_version=None, pv_formula=None, permissible_values={'soil': PermissibleValue(text='soil', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None), 'water_extract_soil': PermissibleValue(text='water_extract_soil', description=None, meaning=None, unit=None, is_a=None, mixins=[], extensions={}, annotations={}, alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema=None, imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None)}, include=[], minus=[], inherits=[], reachable_from=None, matches=None, concepts=[])}" ; + linkml:id "https://example.com/nmdc_submission_schema" ; + linkml:types "{'unit': TypeDefinition(name='unit', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Unit', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a string representation of a unit', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[\"why isn't this picked up from the nmdc.yaml import?\"], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=['qud:Unit', 'UO:0000000'], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='str', uri='xsd:string', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'decimal degree': TypeDefinition(name='decimal degree', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DecimalDegree', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a float representation of a degree of rotation', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='float', uri='xsd:decimal', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'language code': TypeDefinition(name='language code', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/LanguageCode', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a string representation of a language', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='str', uri='xsd:language', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'string': TypeDefinition(name='string', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/String', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A character string', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Text'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='str', uri='xsd:string', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'integer': TypeDefinition(name='integer', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Integer', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='An integer', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Integer'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='int', uri='xsd:integer', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'boolean': TypeDefinition(name='boolean', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Boolean', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A binary (true or false) value', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Boolean'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='Bool', uri='xsd:boolean', repr='bool', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'float': TypeDefinition(name='float', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Float', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A real number that conforms to the xsd:float specification', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Float'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='float', uri='xsd:float', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'double': TypeDefinition(name='double', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Double', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A real number that conforms to the xsd:double specification', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=['schema:Float'], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='float', uri='xsd:double', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'decimal': TypeDefinition(name='decimal', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Decimal', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A real number with arbitrary precision that conforms to the xsd:decimal specification', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=['schema:Number'], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='Decimal', uri='xsd:decimal', repr=None, union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'time': TypeDefinition(name='time', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Time', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A time object represents a (local) time of day, independent of any particular day', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=['URI is dateTime because OWL reasoners do not work with straight date or time'], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Time'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='XSDTime', uri='xsd:dateTime', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'date': TypeDefinition(name='date', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Date', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a date (year, month and day) in an idealized calendar', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[\"URI is dateTime because OWL reasoners don't work with straight date or time\"], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:Date'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='XSDDate', uri='xsd:date', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'datetime': TypeDefinition(name='datetime', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Datetime', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='The combination of a date and time', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=['schema:DateTime'], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='XSDDateTime', uri='xsd:dateTime', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'date_or_datetime': TypeDefinition(name='date_or_datetime', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/DateOrDatetime', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Either a date or a datetime', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='str', uri='linkml:DateOrDatetime', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'uriorcurie': TypeDefinition(name='uriorcurie', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Uriorcurie', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='a URI or a CURIE', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='URIorCURIE', uri='xsd:anyURI', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'curie': TypeDefinition(name='curie', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Curie', local_names={}, conforms_to='https://www.w3.org/TR/curie/', implements=[], extensions={}, annotations={}, description='a compact URI', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['in RDF serializations this MUST be expanded to a URI', 'in non-RDF serializations MAY be serialized as the compact representation'], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='Curie', uri='xsd:string', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'uri': TypeDefinition(name='uri', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Uri', local_names={}, conforms_to='https://www.ietf.org/rfc/rfc3987.txt', implements=[], extensions={}, annotations={}, description='a complete URI', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['in RDF serializations a slot with range of uri is treated as a literal or type xsd:anyURI unless it is an identifier or a reference to an identifier, in which case it is translated directly to a node'], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=['schema:URL'], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='URI', uri='xsd:anyURI', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'ncname': TypeDefinition(name='ncname', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Ncname', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='Prefix part of CURIE', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='NCName', uri='xsd:string', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'objectidentifier': TypeDefinition(name='objectidentifier', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Objectidentifier', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A URI or CURIE that represents an object in the model.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=['Used for inheritence and type checking'], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='ElementIdentifier', uri='shex:iri', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[]), 'nodeidentifier': TypeDefinition(name='nodeidentifier', id_prefixes=[], definition_uri='https://example.com/nmdc_sub_schema/Nodeidentifier', local_names={}, conforms_to=None, implements=[], extensions={}, annotations={}, description='A URI, CURIE or BNODE that represents a node in a model.', alt_descriptions={}, title=None, deprecated=None, todos=[], notes=[], comments=[], examples=[], in_subset=[], from_schema='https://example.com/nmdc_submission_schema', imported_from=None, source=None, in_language=None, see_also=[], deprecated_element_has_exact_replacement=None, deprecated_element_has_possible_replacement=None, aliases=[], structured_aliases={}, mappings=[], exact_mappings=[], close_mappings=[], related_mappings=[], narrow_mappings=[], broad_mappings=[], created_by=None, created_on=None, last_updated_on=None, modified_by=None, status=None, rank=None, typeof=None, base='NodeIdentifier', uri='shex:nonLiteral', repr='str', union_of=[], pattern=None, structured_pattern=None, unit=None, implicit_prefix=None, equals_string=None, equals_string_in=[], equals_number=None, minimum_value=None, maximum_value=None, none_of=[], exactly_one_of=[], any_of=[], all_of=[])}" . + +linkml:SubsetDefinition a owl:Class ; + rdfs:label "subset_definition" ; + linkml:attributes "{}" ; + linkml:is_a "element" . + +nmdc_sub_schema:EcosystemCategoryEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EcosystemCategoryEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values . + +nmdc_sub_schema:EcosystemEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EcosystemEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values . + +nmdc_sub_schema:EcosystemTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EcosystemTypeEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values . + +nmdc_sub_schema:EnvPackageEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EnvPackageEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values . + +nmdc_sub_schema:HcrCoresInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "HcrCoresInterface" ; + dcterms:title "Hcr Cores" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000157 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000438 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000154 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000131 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000408 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000102 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000300 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000423 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000410 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SrKerogTypeEnum ; + owl:onProperty MIXS:0000994 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000998 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000099 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000395 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000405 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000297 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000296 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000429 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000290 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000393 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000434 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:HcrGeolAgeEnum ; + owl:onProperty MIXS:0000993 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000133 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000117 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000135 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000153 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000432 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000407 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000435 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000431 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000409 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000120 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000150 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + 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owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000998 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000126 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000120 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:HcrGeolAgeEnum ; + owl:onProperty MIXS:0000993 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000406 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000300 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000394 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000426 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000291 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000456 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000436 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000457 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000117 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000395 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000150 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:LithologyEnum ; + owl:onProperty MIXS:0000990 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000393 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin ; + skos:definition "hcr_fluids_swabs dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin" . + +nmdc_sub_schema:LanguageCode a owl:Class, + linkml:TypeDefinition ; + rdfs:label "language code" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:language ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:MiscEnvsInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "MiscEnvsInterface" ; + dcterms:title "Misc Envs" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000435 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000094 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000504 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000179 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000424 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000174 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000178 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000162 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000203 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000423 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000204 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000184 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000429 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000176 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000205 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000436 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000426 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000412 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000508 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000434 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000181 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000119 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000432 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000177 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000421 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000430 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin ; + skos:definition "misc_envs dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin" . + +nmdc_sub_schema:NamedThing a owl:Class, + linkml:ClassDefinition ; + rdfs:label "NamedThing" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty dcterms:description ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:name ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:alternative_identifiers ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Uriorcurie ; + owl:onProperty nmdc_sub_schema:id ; + owl:qualifiedCardinality 1 ] ; + skos:definition "a databased entity or concept/class" ; + linkml:attributes "{}" . + +nmdc_sub_schema:SampleData a owl:Class, + linkml:ClassDefinition ; + rdfs:label "SampleData" ; + dcterms:title "SampleData" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:WastewaterSludgeInterface ; + owl:onProperty nmdc_sub_schema:wastewater_sludge_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:SedimentInterface ; + owl:onProperty nmdc_sub_schema:sediment_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AirInterface ; + owl:onProperty nmdc_sub_schema:air_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:JgiMtInterface ; + owl:onProperty nmdc_sub_schema:jgi_mt_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:JgiMgInterface ; + owl:onProperty nmdc_sub_schema:jgi_mg_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:WaterInterface ; + owl:onProperty nmdc_sub_schema:water_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:SoilInterface ; + owl:onProperty nmdc_sub_schema:soil_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:PlantAssociatedInterface ; + owl:onProperty nmdc_sub_schema:plant_associated_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:EmslInterface ; + owl:onProperty nmdc_sub_schema:emsl_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:BuiltEnvInterface ; + owl:onProperty nmdc_sub_schema:built_env_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:HostAssociatedInterface ; + owl:onProperty nmdc_sub_schema:host_associated_data ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:BiofilmInterface ; + owl:onProperty nmdc_sub_schema:biofilm_data ] ; + skos:definition "represents data produced by the DataHarmonizer tabs of the submission portal" ; + linkml:attributes "{}" . + +nmdc_sub_schema:air_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "air_data" ; + rdfs:range nmdc_sub_schema:AirInterface ; + skos:definition "aggregation slot relating air data collections to a SampleData container" . + +nmdc_sub_schema:alternative_identifiers a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "alternative_identifiers" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "A list of alternative identifiers for the entity." . + +nmdc_sub_schema:ammonium_nitrogen a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ammonium_nitrogen" ; + dcterms:title "ammonium nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "NH4-N", + "ammonium_nitrogen" ; + skos:definition "Concentration of ammonium nitrogen in the sample" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mg/kg" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:biofilm_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biofilm_data" ; + rdfs:range nmdc_sub_schema:BiofilmInterface ; + skos:definition "aggregation slot relating biofilm data collections to a SampleData container" . + +nmdc_sub_schema:built_env_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "built_env_data" ; + rdfs:range nmdc_sub_schema:BuiltEnvInterface ; + skos:definition "aggregation slot relating built_env data collections to a SampleData container" . + +nmdc_sub_schema:emsl_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "emsl_data" ; + rdfs:range nmdc_sub_schema:EmslInterface ; + skos:definition "aggregation slot relating emsl data collections to a SampleData container" . + +nmdc_sub_schema:host_associated_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_associated_data" ; + rdfs:range nmdc_sub_schema:HostAssociatedInterface ; + skos:definition "aggregation slot relating host_associated data collections to a SampleData container" . + +nmdc_sub_schema:id a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "id" ; + rdfs:range nmdc_sub_schema:Uriorcurie ; + skos:definition "A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI" . + +nmdc_sub_schema:jgi_mg_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "jgi_mg_data" ; + rdfs:range nmdc_sub_schema:JgiMgInterface ; + skos:definition "aggregation slot relating jgi_mg data collections to a SampleData container" . + +nmdc_sub_schema:jgi_mt_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "jgi_mt_data" ; + rdfs:range nmdc_sub_schema:JgiMtInterface ; + skos:definition "aggregation slot relating jgi_mt data collections to a SampleData container" . + +nmdc_sub_schema:lbc_thirty a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "lbc_thirty" ; + dcterms:title "lime buffer capacity (at 30 minutes)" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "lbc30", + "lbc_thirty", + "lime buffer capacity (at 30 minutes)" ; + skos:definition "lime buffer capacity, determined after 30 minute incubation" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "ppm CaCO3/pH" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:lbceq a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "lbceq" ; + dcterms:title "lime buffer capacity (after 5 day incubation)" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "lbceq", + "lime buffer capacity (at 5-day equilibrium)" ; + skos:definition "lime buffer capacity, determined at equilibrium after 5 day incubation" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "ppm CaCO3/pH" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:manganese a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "manganese" ; + dcterms:title "manganese" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "manganese" ; + skos:definition "Concentration of manganese in the sample" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mg/kg (ppm)" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:name a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "name" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "A human readable label for an entity" . + +nmdc_sub_schema:nitrate_nitrogen a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nitrate_nitrogen" ; + dcterms:title "nitrate_nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "NO3-N", + "nitrate_nitrogen" ; + skos:definition "Concentration of nitrate nitrogen in the sample" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mg/kg" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:nitrite_nitrogen a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nitrite_nitrogen" ; + dcterms:title "nitrite_nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "NO2-N", + "nitrite_nitrogen" ; + skos:definition "Concentration of nitrite nitrogen in the sample" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mg/kg" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:plant_associated_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "plant_associated_data" ; + rdfs:range nmdc_sub_schema:PlantAssociatedInterface ; + skos:definition "aggregation slot relating plant_associated data collections to a SampleData container" . + +nmdc_sub_schema:sample_link a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sample_link" ; + dcterms:title "sample linkage" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample." . + +nmdc_sub_schema:sediment_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sediment_data" ; + rdfs:range nmdc_sub_schema:SedimentInterface ; + skos:definition "aggregation slot relating sediment data collections to a SampleData container" . + +nmdc_sub_schema:soil_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_data" ; + rdfs:range nmdc_sub_schema:SoilInterface ; + skos:definition "aggregation slot relating soil data collections to a SampleData container" . + +nmdc_sub_schema:wastewater_sludge_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wastewater_sludge_data" ; + rdfs:range nmdc_sub_schema:WastewaterSludgeInterface ; + skos:definition "aggregation slot relating wastewater_sludge data collections to a SampleData container" . + +nmdc_sub_schema:water_data a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_data" ; + rdfs:range nmdc_sub_schema:WaterInterface ; + skos:definition "aggregation slot relating water data collections to a SampleData container" . + +nmdc_sub_schema:zinc a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "zinc" ; + dcterms:title "zinc" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "zinc" ; + skos:definition "Concentration of zinc in the sample" ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mg/kg (ppm)" ; + linkml:is_a "attribute" . + +dcterms:description a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "description" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "a human-readable description of a thing" ; + skos:exactMatch dcterms:description . + +nmdc_sub_schema:AirInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "AirInterface" ; + dcterms:title "Air" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000104 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000108 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000112 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000096 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000118 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000115 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000100 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000098 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000114 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000094 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000756 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000101 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000097 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000757 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "air dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:ArchStrucEnum ; + rdfs:label "building" . + + a owl:Class, + nmdc_sub_schema:ArchStrucEnum ; + rdfs:label "home" . + + a owl:Class, + nmdc_sub_schema:ArchStrucEnum ; + rdfs:label "shed" . + +nmdc_sub_schema:BiofilmInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "BiofilmInterface" ; + dcterms:title "Biofilm" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000137 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000533 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000172 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000179 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000503 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000515 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000508 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000310 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000119 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000175 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000101 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000094 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000424 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000182 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000516 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000185 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000162 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000426 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000174 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000178 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000173 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000204 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000490 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000431 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000498 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000176 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000177 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000181 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000184 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000412 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000421 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000433 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000436 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000530 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000430 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000525 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000432 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000180 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000423 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000504 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000191 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000434 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000502 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000429 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000205 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "biofilm dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "breeder's line" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "clonal selection" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "hybrid" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "inbred line" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "mutant" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "natural" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "semi-natural" . + + a owl:Class, + nmdc_sub_schema:BiolStatEnum ; + rdfs:label "wild" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "commensal" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "commensalism" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "mutualism" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "parasite" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "parasitism" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "symbiont" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "symbiotic" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "building information model" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "commissioning report" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "complaint logs" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "contract administration" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "cost estimate" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "janitorial schedules or logs" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "maintenance plans" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "schedule" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "sections" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "shop drawings" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "submittals" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "ventilation system" . + + a owl:Class, + nmdc_sub_schema:BuildDocsEnum ; + rdfs:label "windows" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "airport" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "commercial" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "health care" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "high rise" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "low rise" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "market" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "office" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "residence" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "residential" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "restaurant" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "school" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "sports complex" . + + a owl:Class, + nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:label "wood framed" . + + a owl:Class, + nmdc_sub_schema:BuildingSettingEnum ; + rdfs:label "exurban" . + + a owl:Class, + nmdc_sub_schema:BuildingSettingEnum ; + rdfs:label "rural" . + + a owl:Class, + nmdc_sub_schema:BuildingSettingEnum ; + rdfs:label "suburban" . + + a owl:Class, + nmdc_sub_schema:BuildingSettingEnum ; + rdfs:label "urban" . + +nmdc_sub_schema:BuiltEnvInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "BuiltEnvInterface" ; + dcterms:title "Built Env" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000143 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000819 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000772 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000243 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ExtWallOrientEnum ; + owl:onProperty MIXS:0000817 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0000760 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowMatEnum ; + owl:onProperty MIXS:0000853 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000167 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000244 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000169 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SurfMaterialEnum ; + owl:onProperty MIXS:0000758 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SeasonUseEnum ; + owl:onProperty MIXS:0000830 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000781 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RoomSampPosEnum ; + owl:onProperty MIXS:0000824 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:CeilTextureEnum ; + owl:onProperty MIXS:0000783 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000234 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Integer ; + owl:onProperty MIXS:0000237 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorTypeMetalEnum ; + owl:onProperty MIXS:0000796 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000814 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000224 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000756 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000197 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:QuadPosEnum ; + owl:onProperty MIXS:0000820 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:TrainStopLocEnum ; + owl:onProperty MIXS:0000839 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000854 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:CeilCondEnum ; + owl:onProperty MIXS:0000779 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000221 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000166 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowCondEnum ; + owl:onProperty MIXS:0000849 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DrawingsEnum ; + owl:onProperty MIXS:0000798 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WallTextureEnum ; + owl:onProperty MIXS:0000846 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000219 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000165 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000125 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000123 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:HandidnessEnum ; + owl:onProperty MIXS:0000809 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000122 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorMoveEnum ; + owl:onProperty MIXS:0000792 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:CeilTypeEnum ; + owl:onProperty MIXS:0000784 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000800 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000228 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000829 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FloorWaterMoldEnum ; + owl:onProperty MIXS:0000805 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000223 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000194 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowHorizPosEnum ; + owl:onProperty MIXS:0000851 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000198 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ShadingDeviceCondEnum ; + owl:onProperty MIXS:0000831 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000773 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:BuildDocsEnum ; + owl:onProperty MIXS:0000787 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000124 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RoomTypeEnum ; + owl:onProperty MIXS:0000825 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampFloorEnum ; + owl:onProperty MIXS:0000828 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000233 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000832 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorMatEnum ; + owl:onProperty MIXS:0000791 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000217 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000196 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:LightTypeEnum ; + owl:onProperty MIXS:0000769 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000094 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000799 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:TrainStatLocEnum ; + owl:onProperty MIXS:0000838 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000142 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorTypeWoodEnum ; + owl:onProperty MIXS:0000797 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ArchStrucEnum ; + owl:onProperty MIXS:0000774 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000236 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000144 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000776 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000128 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:BuildOccupTypeEnum ; + owl:onProperty MIXS:0000761 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:GenderRestroomEnum ; + owl:onProperty MIXS:0000808 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WallSurfTreatmentEnum ; + owl:onProperty MIXS:0000845 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000855 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:TrainLineEnum ; + owl:onProperty MIXS:0000837 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000231 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000226 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000193 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorCompTypeEnum ; + owl:onProperty MIXS:0000795 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:HeatCoolTypeEnum ; + owl:onProperty MIXS:0000766 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000170 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RoomLocEnum ; + owl:onProperty MIXS:0000823 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WallLocEnum ; + owl:onProperty MIXS:0000843 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000778 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:IndoorSurfEnum ; + owl:onProperty MIXS:0000764 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ShadingDeviceTypeEnum ; + owl:onProperty MIXS:0000835 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000097 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000218 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000833 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:HeatDelivLocEnum ; + owl:onProperty MIXS:0000810 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FurnitureEnum ; + owl:onProperty MIXS:0000807 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:FilterTypeEnum ; + owl:onProperty MIXS:0000765 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000140 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000844 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OccupDocumentEnum ; + owl:onProperty MIXS:0000816 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FloorCondEnum ; + owl:onProperty MIXS:0000803 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000770 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:SubstructureTypeEnum ; + owl:onProperty MIXS:0000767 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ExtWindowOrientEnum ; + owl:onProperty MIXS:0000818 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000245 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WaterFeatTypeEnum ; + owl:onProperty MIXS:0000847 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampWeatherEnum ; + owl:onProperty MIXS:0000827 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000227 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:SurfAirContEnum ; + owl:onProperty MIXS:0000759 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorCondEnum ; + owl:onProperty MIXS:0000788 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:BuildingSettingEnum ; + owl:onProperty MIXS:0000768 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:VisMediaEnum ; + owl:onProperty MIXS:0000840 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000793 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000216 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000721 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000158 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000220 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000121 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000148 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000230 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Integer ; + owl:onProperty MIXS:0000235 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000164 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FloorStrucEnum ; + owl:onProperty MIXS:0000806 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000785 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:CeilFinishMatEnum ; + owl:onProperty MIXS:0000780 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FloorFinishMatEnum ; + owl:onProperty MIXS:0000804 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RelSampLocEnum ; + owl:onProperty MIXS:0000821 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000246 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000195 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000192 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowLocEnum ; + owl:onProperty MIXS:0000852 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WallFinishMatEnum ; + owl:onProperty MIXS:0000842 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowCoverEnum ; + owl:onProperty MIXS:0000850 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorTypeEnum ; + owl:onProperty MIXS:0000794 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorDirectEnum ; + owl:onProperty MIXS:0000789 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000232 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000145 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000168 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WeekdayEnum ; + owl:onProperty MIXS:0000848 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000802 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000229 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000775 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000834 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowTypeEnum ; + owl:onProperty MIXS:0000856 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000812 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000238 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000782 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:IndoorSpaceEnum ; + owl:onProperty MIXS:0000763 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000129 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000222 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WindowVertPosEnum ; + owl:onProperty MIXS:0000857 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000188 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:MechStrucEnum ; + owl:onProperty MIXS:0000815 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:IntWallCondEnum ; + owl:onProperty MIXS:0000813 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DoorLocEnum ; + owl:onProperty MIXS:0000790 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000777 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0000771 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000786 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RoomCondtEnum ; + owl:onProperty MIXS:0000822 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SpecificEnum ; + owl:onProperty MIXS:0000836 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000214 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:WallConstTypeEnum ; + owl:onProperty MIXS:0000841 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:RoomConnectedEnum ; + owl:onProperty MIXS:0000826 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000242 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000141 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "built_env dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:CeilCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:CeilCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:CeilCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:CeilCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:CeilCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "PVC" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "drywall" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "fiberglass" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "mineral fibre" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "mineral wool/calcium silicate" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "plasterboard" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "stucco" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "tiles" . + + a owl:Class, + nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:label "wood" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "Santa-Fe texture" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "crows feet" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "crows-foot stomp" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "double skip" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "hawk and trowel" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "knockdown" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "orange peel" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "popcorn" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "rosebud stomp" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "skip trowel" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "smooth" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "stomp knockdown" . + + a owl:Class, + nmdc_sub_schema:CeilTextureEnum ; + rdfs:label "swirl" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "barrel-shaped" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "cathedral" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "coffered" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "concave" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "cove" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "dropped" . + + a owl:Class, + nmdc_sub_schema:CeilTypeEnum ; + rdfs:label "stretched" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "badlands" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "cities" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "conifers" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "crop trees" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "farmstead" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "gravel" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "hardwoods" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "hayland" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "horticultural plants" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "industrial areas" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "intermixed hardwood and conifers" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "marshlands" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "meadows" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "mines/quarries" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "mudflats" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "oil waste areas" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "pastureland" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "permanent snow or ice" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "rainforest" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "rangeland" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "roads/railroads" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "rock" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "row crops" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "saline seeps" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "salt flats" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "sand" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "shrub crops" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "shrub land" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "small grains" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "successional shrub land" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "swamp" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "tropical" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "tundra" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "vegetable crops" . + + a owl:Class, + nmdc_sub_schema:CurLandUseEnum ; + rdfs:label "vine crops" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Continental - Aeolian" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Continental - Alluvial" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Continental - Fluvial" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Continental - Lacustrine" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Marine - Deep" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Marine - Reef" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Marine - Shallow" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Other - Evaporite" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Other - Glacial" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Other - Volcanic" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Transitional - Beach" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Transitional - Deltaic" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Transitional - Lagoonal" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Transitional - Lake" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "Transitional - Tidal" . + + a owl:Class, + nmdc_sub_schema:DeposEnvEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Gentegra-DNA" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Gentegra-RNA" . + + a owl:Class, + nmdc_sub_schema:DoorCompTypeEnum ; + rdfs:label "metal covered" . + + a owl:Class, + nmdc_sub_schema:DoorCompTypeEnum ; + rdfs:label "revolving" . + + a owl:Class, + nmdc_sub_schema:DoorCompTypeEnum ; + rdfs:label "sliding" . + + a owl:Class, + nmdc_sub_schema:DoorCompTypeEnum ; + rdfs:label "telescopic" . + + a owl:Class, + nmdc_sub_schema:DoorCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:DoorCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:DoorCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:DoorCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:DoorCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:DoorDirectEnum ; + rdfs:label "inward" . + + a owl:Class, + nmdc_sub_schema:DoorDirectEnum ; + rdfs:label "outward" . + + a owl:Class, + nmdc_sub_schema:DoorDirectEnum ; + rdfs:label "sideways" . + + a owl:Class, + nmdc_sub_schema:DoorLocEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:DoorLocEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:DoorLocEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:DoorLocEnum ; + rdfs:label "west" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "aluminum" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "cellular PVC" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "engineered plastic" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "fiberboard" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "fiberglass" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "thermoplastic alloy" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "vinyl" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "wood" . + + a owl:Class, + nmdc_sub_schema:DoorMatEnum ; + rdfs:label "wood/plastic composite" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "collapsible" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "folding" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "revolving" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "rolling shutter" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "sliding" . + + a owl:Class, + nmdc_sub_schema:DoorMoveEnum ; + rdfs:label "swinging" . + + a owl:Class, + nmdc_sub_schema:DoorTypeEnum ; + rdfs:label "composite" . + + a owl:Class, + nmdc_sub_schema:DoorTypeEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:DoorTypeEnum ; + rdfs:label "wooden" . + + a owl:Class, + nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:label "collapsible" . + + a owl:Class, + nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:label "corrugated steel" . + + a owl:Class, + nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:label "hollow" . + + a owl:Class, + nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:label "rolling shutters" . + + a owl:Class, + nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:label "steel plate" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "battened" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "bettened and ledged" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "flush" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "framed and paneled" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "glashed or sash" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "ledged and braced" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "ledged and framed" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "ledged, braced and frame" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "louvered" . + + a owl:Class, + nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:label "wire gauged" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "excessively drained" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "moderately well" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "poorly" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "somewhat poorly" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "very poorly" . + + a owl:Class, + nmdc_sub_schema:DrainageClassEnum ; + rdfs:label "well" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "as built" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "bid" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "building navigation map" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "construction" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "design" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "diagram" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "operation" . + + a owl:Class, + nmdc_sub_schema:DrawingsEnum ; + rdfs:label "sketch" . + + a owl:Class, + nmdc_sub_schema:EcosystemCategoryEnum ; + rdfs:label "Terrestrial" . + + a owl:Class, + nmdc_sub_schema:EcosystemEnum ; + rdfs:label "Environmental" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Biocrust" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Biofilm" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Bulk soil" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Clay" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Floodplain" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Fossil" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Glacier" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Loam" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Mineral horizon" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Nature reserve" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Organic layer" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Paddy field/soil" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Pasture" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Peat" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Ranch" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Sand" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Silt" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Soil crust" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Unclassified" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Watershed" . + + a owl:Class, + nmdc_sub_schema:EcosystemSubtypeEnum ; + rdfs:label "Wetlands" . + + a owl:Class, + nmdc_sub_schema:EcosystemTypeEnum ; + rdfs:label "Soil" . + +nmdc_sub_schema:EmslInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "EmslInterface" ; + dcterms:title "Emsl" ; + rdfs:subClassOf [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Integer ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Integer ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:SampleTypeEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin ; + skos:definition "emsl dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "________mediterranean savanna biome [ENVO:01000229]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______flooded savanna biome [ENVO:01000190]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______mediterranean shrubland biome [ENVO:01000217]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______mediterranean woodland biome [ENVO:01000208]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______montane savanna biome [ENVO:01000223]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______subtropical savanna biome [ENVO:01000187]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______temperate savanna biome [ENVO:01000189]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______tropical savanna biome [ENVO:01000188]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "______urban biome [ENVO:01000249]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____alpine tundra biome [ENVO:01001505]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____dense settlement biome [ENVO:01000248]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____mediterranean savanna biome [ENVO:01000229]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____mediterranean shrubland biome [ENVO:01000217]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____mediterranean woodland biome [ENVO:01000208]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____montane shrubland biome [ENVO:01000216]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____rangeland biome [ENVO:01000247]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____savanna biome [ENVO:01000178]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____subtropical shrubland biome [ENVO:01000213]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____subtropical woodland biome [ENVO:01000222]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____temperate shrubland biome [ENVO:01000215]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____temperate woodland biome [ENVO:01000221]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____tidal mangrove shrubland [ENVO:01001369]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____tropical shrubland biome [ENVO:01000214]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____tropical woodland biome [ENVO:01000220]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____village biome [ENVO:01000246]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "____xeric shrubland biome [ENVO:01000218]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__alpine tundra biome [ENVO:01001505]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__anthropogenic terrestrial biome [ENVO:01000219]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__mangrove biome [ENVO:01000181]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__mediterranean biome [ENVO:01001833]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__montane savanna biome [ENVO:01000223]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__montane shrubland biome [ENVO:01000216]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__shrubland biome [ENVO:01000176]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__subtropical savanna biome [ENVO:01000187]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__subtropical shrubland biome [ENVO:01000213]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__subtropical woodland biome [ENVO:01000222]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__temperate savanna biome [ENVO:01000189]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__temperate shrubland biome [ENVO:01000215]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__temperate woodland biome [ENVO:01000221]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__tropical savanna biome [ENVO:01000188]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__tropical shrubland biome [ENVO:01000214]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__tropical woodland biome [ENVO:01000220]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__tundra biome [ENVO:01000180]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "__woodland biome [ENVO:01000175]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "alpine biome [ENVO:01001835]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "arid biome [ENVO:01001838]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "montane biome [ENVO:01001836]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "polar biome [ENVO:01000339]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "subalpine biome [ENVO:01001837]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "subpolar biome [ENVO:01001834]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "subtropical biome [ENVO:01001832]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "temperate biome [ENVO:01001831]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "terrestrial biome [ENVO:00000446]" . + + a owl:Class, + nmdc_sub_schema:EnvBroadScaleSoilEnum ; + rdfs:label "tropical biome [ENVO:01001830]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________canyon [ENVO:00000169]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________ditch [ENVO:00000037]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________dry river [ENVO:01000995]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________dry valley [ENVO:00000128]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________dune [ENVO:00000170]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________glacial valley [ENVO:00000248]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________plumbing drain [ENVO:01000924]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____________tuff cone [ENVO:01000664]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________artificial channel [ENVO:00000121]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________butte [ENVO:00000287]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________caldera [ENVO:00000096]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________dry stream [ENVO:00000278]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________hill [ENVO:00000083]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________impact crater [ENVO:01001071]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________lake shore [ENVO:00000382]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________mesa [ENVO:00000179]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________mountain [ENVO:00000081]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________plateau [ENVO:00000182]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________strait [ENVO:00000394]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________valley [ENVO:00000100]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________volcanic cone [ENVO:00000398]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__________volcanic crater [ENVO:00000246]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________active geological fault [ENVO:01000669]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________badland [ENVO:00000127]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________bank [ENVO:00000141]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________beach [ENVO:00000091]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________boulder field [ENVO:00000537]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________cave [ENVO:00000067]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________channel of a watercourse [ENVO:00000395]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________cliff [ENVO:00000087]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________crater [ENVO:00000514]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________desert [ENVO:01001357]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________dry lake [ENVO:00000277]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________flattened elevation [ENVO:01001491]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________geographic basin [ENVO:03000015]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________hillside [ENVO:01000333]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________hummock [ENVO:00000516]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________isthmus [ENVO:00000174]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________karst [ENVO:00000175]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________landfill [ENVO:00000533]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________levee [ENVO:00000178]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________mount [ENVO:00000477]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________outcrop [ENVO:01000302]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________peninsula [ENVO:00000305]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________pinnacle [ENVO:00000481]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________pit [ENVO:01001871]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________plain [ENVO:00000086]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________residential backyard [ENVO:03600033]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________ridge [ENVO:00000283]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________shore [ENVO:00000304]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________sinkhole [ENVO:00000195]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________spring [ENVO:00000027]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________swale [ENVO:00000543]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________talus slope [ENVO:01000334]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________terrace [ENVO:00000508]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________tombolo [ENVO:00000420]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________trench [ENVO:01000649]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________tunnel [ENVO:00000068]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "________volcanic feature [ENVO:00000094]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______bar [ENVO:00000167]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______channel [ENVO:03000117]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______depressed landform [ENVO:00000309]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______elevated landform [ENVO:00000176]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______garden [ENVO:00000011]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______geological fault [ENVO:01000668]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______inlet [ENVO:00000475]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______landform [ENVO:01001886]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______market [ENVO:01000987]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______park [ENVO:00000562]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______peak [ENVO:00000480]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______peninsula [ENVO:00000305]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______reef [ENVO:01001899]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______slope [ENVO:00002000]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______surface landform [ENVO:01001884]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______vein [ENVO:01000670]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______volcano [ENVO:00000247]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______well [ENVO:00000026]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "______yard [ENVO:03600053]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____agricultural field [ENVO:00000114]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____anthropogenic geographic feature [ENVO:00000002]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____geological fracture [ENVO:01000667]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____gravel field [ENVO:00000548]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____hydrographic feature [ENVO:00000012]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____lava field [ENVO:01000437]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____part of a landmass [ENVO:01001781]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____snow field [ENVO:00000146]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "____woodland clearing [ENVO:00000444]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__coast [ENVO:01000687]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__field [ENVO:01000352]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__geographic feature [ENVO:00000000]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "__solid astronomical body part [ENVO:00000191]" . + + a owl:Class, + nmdc_sub_schema:EnvLocalScaleSoilEnum ; + rdfs:label "astronomical body part [ENVO:01000813]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "____alluvial paddy field soil [ENVO:00005759]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "____peaty paddy field soil [ENVO:00005776]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "____sandy clay loam [ENVO:06105276]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "____silty clay loam [ENVO:06105278]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__acrisol [ENVO:00002234]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__allotment garden soil [ENVO:00005744]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__alluvial paddy field soil [ENVO:00005759]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__alluvial swamp soil [ENVO:00005758]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__beech forest soil [ENVO:00005770]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__bluegrass field soil [ENVO:00005789]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__clay loam [ENVO:06105277]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__cryosol [ENVO:00002236]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__dune soil [ENVO:00002260]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__eucalyptus forest soil [ENVO:00005787]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__friable-frozen soil [ENVO:01001528]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__frozen compost soil [ENVO:00005765]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__hard-frozen soil [ENVO:01001525]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__leafy wood soil [ENVO:00005783]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__mountain forest soil [ENVO:00005769]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__orchard soil [ENVO:00005772]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__paddy field soil [ENVO:00005740]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__peat soil [ENVO:00005774]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__plastic-frozen soil [ENVO:01001527]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__rubber plantation soil [ENVO:00005788]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__sandy loam [ENVO:06105274]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__savanna soil [ENVO:00005746]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__silty loam [ENVO:06105275]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__spruce forest soil [ENVO:00005784]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__steppe soil [ENVO:00005777]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__vegetable garden soil [ENVO:00005779]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "__volcanic soil [ENVO:01001841]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "acidic soil [ENVO:01001185]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "agricultural soil [ENVO:00002259]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "albeluvisol [ENVO:00002233]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "alisol [ENVO:00002231]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "alluvial soil [ENVO:00002871]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "alpine soil [ENVO:00005741]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "andosol [ENVO:00002232]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "anthrosol [ENVO:00002230]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "arable soil [ENVO:00005742]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "arenosol [ENVO:00002229]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "bare soil [ENVO:01001616]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "bulk soil [ENVO:00005802]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "burned soil [ENVO:00005760]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "calcisol [ENVO:00002239]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "cambisol [ENVO:00002235]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "chernozem [ENVO:00002237]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "clay soil [ENVO:00002262]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "compost soil [ENVO:00005747]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "dry soil [ENVO:00005748]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "durisol [ENVO:00002238]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "farm soil [ENVO:00005749]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "ferralsol [ENVO:00002246]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "fertilized soil [ENVO:00005754]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "field soil [ENVO:00005755]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "fluvisol [ENVO:00002273]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "forest soil [ENVO:00002261]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "frost-susceptible soil [ENVO:01001638]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "frozen soil [ENVO:01001526]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "garden soil [ENVO:00002263]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "gleysol [ENVO:00002244]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "grassland soil [ENVO:00005750]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "greenhouse soil [ENVO:00005780]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "gypsisol [ENVO:00002245]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "heat stressed soil [ENVO:00005781]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "histosol [ENVO:00002243]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "jungle soil [ENVO:00005751]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "kastanozem [ENVO:00002240]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "lawn soil [ENVO:00005756]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "leptosol [ENVO:00002241]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "limed soil [ENVO:00005766]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "lixisol [ENVO:00002242]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "loam [ENVO:00002258]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "luvisol [ENVO:00002248]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "mangrove biome soil [ENVO:02000138]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "manured soil [ENVO:00005767]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "meadow soil [ENVO:00005761]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "muddy soil [ENVO:00005771]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "nitisol [ENVO:00002247]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "orchid soil [ENVO:00005768]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "ornithogenic soil [ENVO:00005782]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "pasture soil [ENVO:00005773]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "pathogen-suppressive soil [ENVO:03600036]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "phaeozem [ENVO:00002249]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "planosol [ENVO:00002251]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "plinthosol [ENVO:00002250]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "podzol [ENVO:00002257]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "pond soil [ENVO:00005764]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "red soil [ENVO:00005790]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "regosol [ENVO:00002256]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "roadside soil [ENVO:00005743]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "sawah soil [ENVO:00005752]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "solonchak [ENVO:00002252]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "solonetz [ENVO:00002255]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "stagnosol [ENVO:00002274]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "surface soil [ENVO:02000059]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "technosol [ENVO:00002275]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "tropical soil [ENVO:00005778]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "ultisol [ENVO:01001397]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "umbrisol [ENVO:00002253]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "upland soil [ENVO:00005786]" . + + a owl:Class, + nmdc_sub_schema:EnvMediumSoilEnum ; + rdfs:label "vertisol [ENVO:00002254]" . + + a owl:Class, + nmdc_sub_schema:EnvPackageEnum ; + rdfs:label "soil" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "northeast" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "northwest" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "southeast" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "southwest" . + + a owl:Class, + nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:label "west" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "northeast" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "northwest" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "southeast" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "southwest" . + + a owl:Class, + nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:label "west" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Acrisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Andosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Arenosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Cambisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Chernozems" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Ferralsols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Fluvisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Gleysols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Greyzems" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Gypsisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Histosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Kastanozems" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Lithosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Luvisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Nitosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Phaeozems" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Planosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Podzols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Podzoluvisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Rankers" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Regosols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Rendzinas" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Solonchaks" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Solonetz" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Vertisols" . + + a owl:Class, + nmdc_sub_schema:FaoClassEnum ; + rdfs:label "Yermosols" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "HEPA" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "chemical air filter" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "electrostatic" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "gas-phase or ultraviolet air treatments" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "low-MERV pleated media" . + + a owl:Class, + nmdc_sub_schema:FilterTypeEnum ; + rdfs:label "particulate air filter" . + + a owl:Class, + nmdc_sub_schema:FloorCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:FloorCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:FloorCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:FloorCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:FloorCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "bamboo" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "carpet" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "clear finish" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "concrete" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "cork" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "laminate wood" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "lineoleum" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "none" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "none or unfinished" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "paint" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "rug" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "sealed" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "sheet vinyl" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "stone" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "terrazo" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "tile" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "vinyl composition tile" . + + a owl:Class, + nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:label "wood strip or parquet" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "balcony" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "concrete" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "floating floor" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "glass floor" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "raised floor" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "sprung floor" . + + a owl:Class, + nmdc_sub_schema:FloorStrucEnum ; + rdfs:label "wood-framed" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "bulging walls" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "ceiling discoloration" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "condensation" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "floor discoloration" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "mold odor" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "peeling paint or wallpaper" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "wall discoloration" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "water stains" . + + a owl:Class, + nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:label "wet floor" . + + a owl:Class, + nmdc_sub_schema:FurnitureEnum ; + rdfs:label "cabinet" . + + a owl:Class, + nmdc_sub_schema:FurnitureEnum ; + rdfs:label "chair" . + + a owl:Class, + nmdc_sub_schema:FurnitureEnum ; + rdfs:label "desks" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "all gender" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "female" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "gender neurtral" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "male" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "male and female" . + + a owl:Class, + nmdc_sub_schema:GenderRestroomEnum ; + rdfs:label "unisex" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "experimental_garden" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "field" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "field_incubation" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "glasshouse" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "greenhouse" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "growth_chamber" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "lab_incubation" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "open_top_chamber" . + + a owl:Class, + nmdc_sub_schema:GrowthFacilEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:GrowthHabitEnum ; + rdfs:label "erect" . + + a owl:Class, + nmdc_sub_schema:GrowthHabitEnum ; + rdfs:label "prostrate" . + + a owl:Class, + nmdc_sub_schema:GrowthHabitEnum ; + rdfs:label "semi-erect" . + + a owl:Class, + nmdc_sub_schema:GrowthHabitEnum ; + rdfs:label "spreading" . + + a owl:Class, + nmdc_sub_schema:HandidnessEnum ; + rdfs:label "ambidexterity" . + + a owl:Class, + nmdc_sub_schema:HandidnessEnum ; + rdfs:label "left handedness" . + + a owl:Class, + nmdc_sub_schema:HandidnessEnum ; + rdfs:label "mixed-handedness" . + + a owl:Class, + nmdc_sub_schema:HandidnessEnum ; + rdfs:label "right handedness" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "Bitumen" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "Coalbed Methane" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "Gas" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "Gas-Condensate" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "Oil" . + + a owl:Class, + nmdc_sub_schema:HcProducedEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Coalbed" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Gas Reservoir" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Oil Reservoir" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Oil Sand" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Shale" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Tight Gas Reservoir" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "Tight Oil Reservoir" . + + a owl:Class, + nmdc_sub_schema:HcrEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Archean" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Cambrian" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Carboniferous" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Cenozoic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Cretaceous" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Devonian" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Jurassic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Mesozoic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Neogene" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Ordovician" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Paleogene" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Paleozoic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Permian" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Precambrian" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Proterozoic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Silurian" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "Triassic" . + + a owl:Class, + nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:label "forced air system" . + + a owl:Class, + nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:label "heat pump" . + + a owl:Class, + nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:label "radiant system" . + + a owl:Class, + nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:label "steam forced heat" . + + a owl:Class, + nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:label "wood stove" . + + a owl:Class, + nmdc_sub_schema:HeatDelivLocEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:HeatDelivLocEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:HeatDelivLocEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:HeatDelivLocEnum ; + rdfs:label "west" . + +nmdc_sub_schema:HostAssociatedInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "HostAssociatedInterface" ; + dcterms:title "Host Associated" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000260 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000258 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000247 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000871 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000250 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000259 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000874 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000875 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000866 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000869 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000255 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:HostSexEnum ; + owl:onProperty MIXS:0000811 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000261 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000248 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000094 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000274 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000870 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:BiolStatEnum ; + owl:onProperty MIXS:0000858 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000251 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000264 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000888 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampCaptStatusEnum ; + owl:onProperty MIXS:0000860 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000252 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001318 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000263 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000859 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000861 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000256 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000365 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001298 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000867 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampDisStageEnum ; + owl:onProperty MIXS:0000249 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000257 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000872 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "host_associated dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:HostSexEnum ; + rdfs:label "female" . + + a owl:Class, + nmdc_sub_schema:HostSexEnum ; + rdfs:label "hermaphrodite" . + + a owl:Class, + nmdc_sub_schema:HostSexEnum ; + rdfs:label "male" . + + a owl:Class, + nmdc_sub_schema:HostSexEnum ; + rdfs:label "neuter" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "bathroom" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "bedroom" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "elevator" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "foyer" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "hallway" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "kitchen" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "locker room" . + + a owl:Class, + nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:label "office" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "cabinet" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "ceiling" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "counter top" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "door" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "shelving" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "vent cover" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "wall" . + + a owl:Class, + nmdc_sub_schema:IndoorSurfEnum ; + rdfs:label "window" . + + a owl:Class, + nmdc_sub_schema:IntWallCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:IntWallCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:IntWallCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:IntWallCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:IntWallCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:JgiContTypeEnum ; + rdfs:label "plate" . + + a owl:Class, + nmdc_sub_schema:JgiContTypeEnum ; + rdfs:label "tube" . + +nmdc_sub_schema:JgiMgInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "JgiMgInterface" ; + dcterms:title "JGI MG" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:DnaSampleFormatEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:YesNoEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:JgiContTypeEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin ; + skos:definition "jgi_mg dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin" . + +nmdc_sub_schema:JgiMtInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "JgiMtInterface" ; + dcterms:title "JGI MT" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:RnaSampleFormatEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:YesNoEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:JgiContTypeEnum ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Float ; + owl:onProperty ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + [ a owl:Restriction ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ; + owl:qualifiedCardinality 1 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin ; + skos:definition "jgi_mt dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin" . + + a owl:Class, + nmdc_sub_schema:LightTypeEnum ; + rdfs:label "desk lamp" . + + a owl:Class, + nmdc_sub_schema:LightTypeEnum ; + rdfs:label "electric light" . + + a owl:Class, + nmdc_sub_schema:LightTypeEnum ; + rdfs:label "flourescent lights" . + + a owl:Class, + nmdc_sub_schema:LightTypeEnum ; + rdfs:label "natural light" . + + a owl:Class, + nmdc_sub_schema:LightTypeEnum ; + rdfs:label "none" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Basement" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Chalk" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Chert" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Coal" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Conglomerate" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Diatomite" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Dolomite" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Limestone" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Sandstone" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Shale" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Siltstone" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "Volcanic" . + + a owl:Class, + nmdc_sub_schema:LithologyEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "boat" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "bus" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "car" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "carriage" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "coach" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "elevator" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "escalator" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "subway" . + + a owl:Class, + nmdc_sub_schema:MechStrucEnum ; + rdfs:label "train" . + + a owl:Class, + nmdc_sub_schema:OccupDocumentEnum ; + rdfs:label "automated count" . + + a owl:Class, + nmdc_sub_schema:OccupDocumentEnum ; + rdfs:label "estimate" . + + a owl:Class, + nmdc_sub_schema:OccupDocumentEnum ; + rdfs:label "manual count" . + + a owl:Class, + nmdc_sub_schema:OccupDocumentEnum ; + rdfs:label "videos" . + +nmdc_sub_schema:PlantAssociatedInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "PlantAssociatedInterface" ; + dcterms:title "Plant Associated" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000365 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000577 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001062 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000556 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000575 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000264 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000874 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000553 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000570 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000551 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001052 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000591 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001056 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000247 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001057 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001043 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000590 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001038 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001061 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000558 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:PlantSexEnum ; + owl:onProperty MIXS:0001059 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001069 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001063 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000251 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000573 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:BiolStatEnum ; + owl:onProperty MIXS:0000858 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000578 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000559 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001041 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001298 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000257 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000255 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampCaptStatusEnum ; + owl:onProperty MIXS:0000860 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000248 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000859 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001058 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001060 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001040 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000569 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001318 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000576 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000582 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000561 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SampDisStageEnum ; + owl:onProperty MIXS:0000249 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000250 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000567 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000571 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000581 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000557 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:GrowthHabitEnum ; + owl:onProperty MIXS:0001044 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000256 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000263 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000580 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001068 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000568 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000560 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000555 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000579 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001070 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "plant_associated dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Androdioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Androecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Androgynomonoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Androgynous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Andromonoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Bisexual" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Dichogamous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Diclinous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Dioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Gynodioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Gynoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Gynomonoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Hermaphroditic" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Imperfect" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Monoclinous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Monoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Perfect" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Polygamodioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Polygamomonoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Polygamous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Protandrous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Protogynous" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Subandroecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Subdioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Subgynoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Synoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Trimonoecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Trioecious" . + + a owl:Class, + nmdc_sub_schema:PlantSexEnum ; + rdfs:label "Unisexual" . + + a owl:Class, + nmdc_sub_schema:ProfilePositionEnum ; + rdfs:label "backslope" . + + a owl:Class, + nmdc_sub_schema:ProfilePositionEnum ; + rdfs:label "footslope" . + + a owl:Class, + nmdc_sub_schema:ProfilePositionEnum ; + rdfs:label "shoulder" . + + a owl:Class, + nmdc_sub_schema:ProfilePositionEnum ; + rdfs:label "summit" . + + a owl:Class, + nmdc_sub_schema:ProfilePositionEnum ; + rdfs:label "toeslope" . + + a owl:Class, + nmdc_sub_schema:QuadPosEnum ; + rdfs:label "East side" . + + a owl:Class, + nmdc_sub_schema:QuadPosEnum ; + rdfs:label "North side" . + + a owl:Class, + nmdc_sub_schema:QuadPosEnum ; + rdfs:label "South side" . + + a owl:Class, + nmdc_sub_schema:QuadPosEnum ; + rdfs:label "West side" . + + a owl:Class, + nmdc_sub_schema:RelSampLocEnum ; + rdfs:label "center of car" . + + a owl:Class, + nmdc_sub_schema:RelSampLocEnum ; + rdfs:label "edge of car" . + + a owl:Class, + nmdc_sub_schema:RelSampLocEnum ; + rdfs:label "under a seat" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "aerobe" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "anaerobe" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "facultative" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "microaerophilic" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "microanaerobe" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "obligate aerobe" . + + a owl:Class, + nmdc_sub_schema:RelToOxygenEnum ; + rdfs:label "obligate anaerobe" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Gentegra-DNA" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Gentegra-RNA" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "visible signs of mold/mildew" . + + a owl:Class, + nmdc_sub_schema:RoomCondtEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "attic" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "bathroom" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "closet" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "conference room" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "elevator" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "examining room" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "hallway" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "kitchen" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "mail room" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "office" . + + a owl:Class, + nmdc_sub_schema:RoomConnectedEnum ; + rdfs:label "stairwell" . + + a owl:Class, + nmdc_sub_schema:RoomLocEnum ; + rdfs:label "corner room" . + + a owl:Class, + nmdc_sub_schema:RoomLocEnum ; + rdfs:label "exterior wall" . + + a owl:Class, + nmdc_sub_schema:RoomLocEnum ; + rdfs:label "interior room" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "center" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "east corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "north corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "northeast corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "northwest corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "south corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "southeast corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "southwest corner" . + + a owl:Class, + nmdc_sub_schema:RoomSampPosEnum ; + rdfs:label "west corner" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label ",restroom" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "attic" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "auditorium" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "bathroom" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "cafe" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "closet" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "conference room" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "data center" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "elevator" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "examining room" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "gymnasium" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "hallway" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "kitchen" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "laboratory_dry" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "laboratory_wet" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "lobby" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "lockers" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "mail room" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "mechanical or electrical room" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "natatorium" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "open office" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "private office" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "stairwell" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "vestibule" . + + a owl:Class, + nmdc_sub_schema:RoomTypeEnum ; + rdfs:label "warehouse" . + + a owl:Class, + nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:label "active surveillance in response to an outbreak" . + + a owl:Class, + nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:label "active surveillance not initiated by an outbreak" . + + a owl:Class, + nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:label "farm sample" . + + a owl:Class, + nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:label "market sample" . + + a owl:Class, + nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "drilling rig" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "separator" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "storage tank" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "test well" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "well" . + + a owl:Class, + nmdc_sub_schema:SampCollectPointEnum ; + rdfs:label "wellhead" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "dissemination" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "growth and reproduction" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "infection" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "inoculation" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SampDisStageEnum ; + rdfs:label "penetration" . + + a owl:Class, + nmdc_sub_schema:SampFloorEnum ; + rdfs:label "1st floor" . + + a owl:Class, + nmdc_sub_schema:SampFloorEnum ; + rdfs:label "2nd floor" . + + a owl:Class, + nmdc_sub_schema:SampFloorEnum ; + rdfs:label "basement" . + + a owl:Class, + nmdc_sub_schema:SampFloorEnum ; + rdfs:label "lobby" . + + a owl:Class, + nmdc_sub_schema:SampSubtypeEnum ; + rdfs:label "biofilm" . + + a owl:Class, + nmdc_sub_schema:SampSubtypeEnum ; + rdfs:label "not applicable" . + + a owl:Class, + nmdc_sub_schema:SampSubtypeEnum ; + rdfs:label "oil phase" . + + a owl:Class, + nmdc_sub_schema:SampSubtypeEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SampSubtypeEnum ; + rdfs:label "water phase" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "clear sky" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "cloudy" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "foggy" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "hail" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "rain" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "sleet" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "snow" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "sunny" . + + a owl:Class, + nmdc_sub_schema:SampWeatherEnum ; + rdfs:label "windy" . + + a owl:Class, + nmdc_sub_schema:SeasonUseEnum ; + rdfs:label "Fall" . + + a owl:Class, + nmdc_sub_schema:SeasonUseEnum ; + rdfs:label "Spring" . + + a owl:Class, + nmdc_sub_schema:SeasonUseEnum ; + rdfs:label "Summer" . + + a owl:Class, + nmdc_sub_schema:SeasonUseEnum ; + rdfs:label "Winter" . + +nmdc_sub_schema:SedimentInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "SedimentInterface" ; + dcterms:title "Sediment" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000162 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000178 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000426 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000424 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000429 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000502 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000530 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000191 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000173 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000177 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000503 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000634 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000310 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000434 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000184 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000435 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000436 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000211 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000176 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000137 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000175 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000205 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000179 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:TidalStageEnum ; + owl:onProperty MIXS:0000750 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000119 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000181 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000185 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000423 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SedimentTypeEnum ; + owl:onProperty MIXS:0001078 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000504 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000430 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000206 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000490 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000516 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000433 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000432 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000525 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000431 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000182 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000101 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000421 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000412 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000498 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000515 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000204 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000508 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000180 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000172 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000533 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000174 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "sediment dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:SedimentTypeEnum ; + rdfs:label "biogenous" . + + a owl:Class, + nmdc_sub_schema:SedimentTypeEnum ; + rdfs:label "cosmogenous" . + + a owl:Class, + nmdc_sub_schema:SedimentTypeEnum ; + rdfs:label "hydrogenous" . + + a owl:Class, + nmdc_sub_schema:SedimentTypeEnum ; + rdfs:label "lithogenous" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "bahama shutters" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "exterior roll blind" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "gambrel awning" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "hood awning" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "porchroller awning" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "sarasota shutters" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "slatted aluminum" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "solid aluminum awning" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "sun screen" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "tree" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "trellis" . + + a owl:Class, + nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:label "venetian awning" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "A horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "B horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "C horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "E horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "M horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "O horizon" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "Permafrost" . + + a owl:Class, + nmdc_sub_schema:SoilHorizonEnum ; + rdfs:label "R layer" . + +nmdc_sub_schema:SoilInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "SoilInterface" ; + dcterms:title "Soil" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000525 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000205 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000318 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000117 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000736 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:lbceq ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000332 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000330 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000533 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000320 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000650 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000569 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000323 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000204 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000607 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:BioticRelationshipEnum ; + owl:onProperty MIXS:0000028 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001038 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ammonium_nitrogen ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000338 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000343 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000735 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:ProfilePositionEnum ; + owl:onProperty MIXS:0001084 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:manganese ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:SoilHorizonEnum ; + owl:onProperty MIXS:0001082 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000324 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000558 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000551 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:DrainageClassEnum ; + owl:onProperty MIXS:0001085 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000646 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000339 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000319 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000331 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000316 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000327 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000336 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001040 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001043 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:CurLandUseEnum ; + owl:onProperty MIXS:0001080 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000328 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000341 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:zinc ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:TillageEnum ; + owl:onProperty MIXS:0001081 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000312 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000310 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000645 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000530 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000322 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:nitrate_nitrogen ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000644 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000639 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001086 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000643 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000591 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000335 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:nitrite_nitrogen ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:FaoClassEnum ; + owl:onProperty MIXS:0001083 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000647 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000642 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000334 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000568 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000315 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:lbc_thirty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000652 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000185 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000314 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000329 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000337 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin, + nmdc_sub_schema:SoilMixsInspiredMixin ; + skos:definition "soil dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin", + "SoilMixsInspiredMixin" . + +nmdc_sub_schema:SoilMixsInspiredMixin a owl:Class, + linkml:ClassDefinition ; + rdfs:label "SoilMixsInspiredMixin" ; + dcterms:title "Soil MIxS Inspired Mixin" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + linkml:mixin ; + skos:definition "Mixin with SoilMixsInspired Terms" ; + linkml:attributes "{}" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Agricultural" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Agricultural land" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Agricultural soil" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Alpine" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Bog" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Boreal forest" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Contaminated" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Desert" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Farm" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Forest Soil" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Forest soil" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Grasslands" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Meadow" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Mine" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Mine drainage" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Oil-contaminated" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Orchard soil" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Permafrost" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Riparian soil" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "River" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Shrubland" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Tropical rainforest" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Unclassified" . + + a owl:Class, + nmdc_sub_schema:SpecificEcosystemEnum ; + rdfs:label "Uranium contaminated" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "as built" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "bid" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "construction" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "design" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "operation" . + + a owl:Class, + nmdc_sub_schema:SpecificEnum ; + rdfs:label "photos" . + + a owl:Class, + nmdc_sub_schema:SrDepEnvEnum ; + rdfs:label "Fluvioldeltaic" . + + a owl:Class, + nmdc_sub_schema:SrDepEnvEnum ; + rdfs:label "Fluviomarine" . + + a owl:Class, + nmdc_sub_schema:SrDepEnvEnum ; + rdfs:label "Lacustine" . + + a owl:Class, + nmdc_sub_schema:SrDepEnvEnum ; + rdfs:label "Marine" . + + a owl:Class, + nmdc_sub_schema:SrDepEnvEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Archean" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Cambrian" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Carboniferous" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Cenozoic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Cretaceous" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Devonian" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Jurassic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Mesozoic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Neogene" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Ordovician" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Paleogene" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Paleozoic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Permian" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Precambrian" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Proterozoic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Silurian" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "Triassic" . + + a owl:Class, + nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:label "Type I" . + + a owl:Class, + nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:label "Type II" . + + a owl:Class, + nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:label "Type III" . + + a owl:Class, + nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:label "Type IV" . + + a owl:Class, + nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SrLithologyEnum ; + rdfs:label "Biosilicieous" . + + a owl:Class, + nmdc_sub_schema:SrLithologyEnum ; + rdfs:label "Carbonate" . + + a owl:Class, + nmdc_sub_schema:SrLithologyEnum ; + rdfs:label "Clastic" . + + a owl:Class, + nmdc_sub_schema:SrLithologyEnum ; + rdfs:label "Coal" . + + a owl:Class, + nmdc_sub_schema:SrLithologyEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:StoreCondEnum ; + rdfs:label "fresh" . + + a owl:Class, + nmdc_sub_schema:StoreCondEnum ; + rdfs:label "frozen" . + + a owl:Class, + nmdc_sub_schema:StoreCondEnum ; + rdfs:label "lyophilized" . + + a owl:Class, + nmdc_sub_schema:StoreCondEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:SubstructureTypeEnum ; + rdfs:label "basement" . + + a owl:Class, + nmdc_sub_schema:SubstructureTypeEnum ; + rdfs:label "crawlspace" . + + a owl:Class, + nmdc_sub_schema:SubstructureTypeEnum ; + rdfs:label "slab on grade" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "biocides" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "biological contaminants" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "dust" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "nutrients" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "organic matter" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "particulate matter" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "radon" . + + a owl:Class, + nmdc_sub_schema:SurfAirContEnum ; + rdfs:label "volatile organic compounds" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "adobe" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "carpet" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "cinder blocks" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "concrete" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "glass" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "hay bales" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "paint" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "plastic" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "stainless steel" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "stone" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "stucco" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "tile" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "vinyl" . + + a owl:Class, + nmdc_sub_schema:SurfMaterialEnum ; + rdfs:label "wood" . + + a owl:Class, + nmdc_sub_schema:TidalStageEnum ; + rdfs:label "ebb tide" . + + a owl:Class, + nmdc_sub_schema:TidalStageEnum ; + rdfs:label "flood tide" . + + a owl:Class, + nmdc_sub_schema:TidalStageEnum ; + rdfs:label "high tide" . + + a owl:Class, + nmdc_sub_schema:TidalStageEnum ; + rdfs:label "low tide" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "chisel" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "cutting disc" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "disc plough" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "drill" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "mouldboard" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "ridge till" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "strip tillage" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "tined" . + + a owl:Class, + nmdc_sub_schema:TillageEnum ; + rdfs:label "zonal tillage" . + + a owl:Class, + nmdc_sub_schema:TrainLineEnum ; + rdfs:label "green" . + + a owl:Class, + nmdc_sub_schema:TrainLineEnum ; + rdfs:label "orange" . + + a owl:Class, + nmdc_sub_schema:TrainLineEnum ; + rdfs:label "red" . + + a owl:Class, + nmdc_sub_schema:TrainStatLocEnum ; + rdfs:label "forest hills" . + + a owl:Class, + nmdc_sub_schema:TrainStatLocEnum ; + rdfs:label "riverside" . + + a owl:Class, + nmdc_sub_schema:TrainStatLocEnum ; + rdfs:label "south station above ground" . + + a owl:Class, + nmdc_sub_schema:TrainStatLocEnum ; + rdfs:label "south station amtrak" . + + a owl:Class, + nmdc_sub_schema:TrainStatLocEnum ; + rdfs:label "south station underground" . + + a owl:Class, + nmdc_sub_schema:TrainStopLocEnum ; + rdfs:label "downtown" . + + a owl:Class, + nmdc_sub_schema:TrainStopLocEnum ; + rdfs:label "end" . + + a owl:Class, + nmdc_sub_schema:TrainStopLocEnum ; + rdfs:label "mid" . + +nmdc_sub_schema:Uriorcurie a owl:Class, + linkml:TypeDefinition ; + rdfs:label "uriorcurie" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:anyURI ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "3D scans" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "commonly of the building" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "equipment" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "interiors" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "photos" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "site context (adjacent buildings, vegetation, terrain, streets)" . + + a owl:Class, + nmdc_sub_schema:VisMediaEnum ; + rdfs:label "videos" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "fire resistive" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "frame construction" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "joisted masonry" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "light noncombustible" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "masonry noncombustible" . + + a owl:Class, + nmdc_sub_schema:WallConstTypeEnum ; + rdfs:label "modified fire resistive" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "acoustical treatment" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "gypsum board" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "gypsum plaster" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "masonry" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "plaster" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "stone facing" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "terrazzo" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "tile" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "veneer plaster" . + + a owl:Class, + nmdc_sub_schema:WallFinishMatEnum ; + rdfs:label "wood" . + + a owl:Class, + nmdc_sub_schema:WallLocEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:WallLocEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:WallLocEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:WallLocEnum ; + rdfs:label "west" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "fabric" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "no treatment" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "painted" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "paneling" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "stucco" . + + a owl:Class, + nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:label "wall paper" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "Santa-Fe texture" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "crows feet" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "crows-foot stomp" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "double skip" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "hawk and trowel" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "knockdown" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "orange peel" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "popcorn" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "rosebud stomp" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "skip trowel" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "smooth" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "stomp knockdown" . + + a owl:Class, + nmdc_sub_schema:WallTextureEnum ; + rdfs:label "swirl" . + +nmdc_sub_schema:WastewaterSludgeInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "WastewaterSludgeInterface" ; + dcterms:title "Wastewater Sludge" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000665 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000350 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000672 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000352 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000656 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000215 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000349 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000673 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000421 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000664 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000348 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000662 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000102 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000689 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000657 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000351 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000150 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000669 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000660 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000653 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000353 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000661 ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "wastewater_sludge dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:label "fountain" . + + a owl:Class, + nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:label "pool" . + + a owl:Class, + nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:label "standing feature" . + + a owl:Class, + nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:label "stream" . + + a owl:Class, + nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:label "waterfall" . + +nmdc_sub_schema:WaterInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "WaterInterface" ; + dcterms:title "Water" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000172 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000175 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000014 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000490 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000103 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000183 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000498 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000116 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000429 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000008 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000725 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000016 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000436 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000738 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000178 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000432 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000017 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000698 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:TidalStageEnum ; + owl:onProperty MIXS:0000750 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000755 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000174 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001225 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000719 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000110 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000508 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000177 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000176 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000741 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000113 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000002 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000412 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000205 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000018 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000736 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000181 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000751 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000179 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000182 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000421 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000013 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000184 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000754 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000424 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000426 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000137 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:Double ; + owl:onProperty MIXS:0001001 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000683 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000298 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000505 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000093 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000430 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000435 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000752 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000504 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000009 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_subtype ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_type ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000427 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000119 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000011 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000010 ], + [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001097 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000704 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:ecosystem_category ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000706 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000102 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000728 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000692 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000634 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000744 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000425 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000310 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000204 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000747 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000502 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000173 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000423 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000745 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000503 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000321 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000012 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000735 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000703 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000203 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000162 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:env_package ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000684 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000428 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000516 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000434 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000191 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000515 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000433 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001106 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000180 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:specific_ecosystem ], + nmdc_sub_schema:DhInterface, + nmdc_sub_schema:DhMultiviewCommonColumnsMixin, + nmdc_sub_schema:SampIdNewTermsMixin ; + skos:definition "water dh_interface" ; + linkml:attributes "{}" ; + linkml:is_a "DhInterface" ; + linkml:mixins "DhMultiviewCommonColumnsMixin", + "SampIdNewTermsMixin" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Friday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Monday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Saturday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Sunday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Thursday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Tuesday" . + + a owl:Class, + nmdc_sub_schema:WeekdayEnum ; + rdfs:label "Wednesday" . + + a owl:Class, + nmdc_sub_schema:WindowCondEnum ; + rdfs:label "damaged" . + + a owl:Class, + nmdc_sub_schema:WindowCondEnum ; + rdfs:label "needs repair" . + + a owl:Class, + nmdc_sub_schema:WindowCondEnum ; + rdfs:label "new" . + + a owl:Class, + nmdc_sub_schema:WindowCondEnum ; + rdfs:label "rupture" . + + a owl:Class, + nmdc_sub_schema:WindowCondEnum ; + rdfs:label "visible wear" . + + a owl:Class, + nmdc_sub_schema:WindowCoverEnum ; + rdfs:label "blinds" . + + a owl:Class, + nmdc_sub_schema:WindowCoverEnum ; + rdfs:label "curtains" . + + a owl:Class, + nmdc_sub_schema:WindowCoverEnum ; + rdfs:label "none" . + + a owl:Class, + nmdc_sub_schema:WindowHorizPosEnum ; + rdfs:label "left" . + + a owl:Class, + nmdc_sub_schema:WindowHorizPosEnum ; + rdfs:label "middle" . + + a owl:Class, + nmdc_sub_schema:WindowHorizPosEnum ; + rdfs:label "right" . + + a owl:Class, + nmdc_sub_schema:WindowLocEnum ; + rdfs:label "east" . + + a owl:Class, + nmdc_sub_schema:WindowLocEnum ; + rdfs:label "north" . + + a owl:Class, + nmdc_sub_schema:WindowLocEnum ; + rdfs:label "south" . + + a owl:Class, + nmdc_sub_schema:WindowLocEnum ; + rdfs:label "west" . + + a owl:Class, + nmdc_sub_schema:WindowMatEnum ; + rdfs:label "clad" . + + a owl:Class, + nmdc_sub_schema:WindowMatEnum ; + rdfs:label "fiberglass" . + + a owl:Class, + nmdc_sub_schema:WindowMatEnum ; + rdfs:label "metal" . + + a owl:Class, + nmdc_sub_schema:WindowMatEnum ; + rdfs:label "vinyl" . + + a owl:Class, + nmdc_sub_schema:WindowMatEnum ; + rdfs:label "wood" . + + a owl:Class, + nmdc_sub_schema:WindowTypeEnum ; + rdfs:label "fixed window" . + + a owl:Class, + nmdc_sub_schema:WindowTypeEnum ; + rdfs:label "horizontal sash window" . + + a owl:Class, + nmdc_sub_schema:WindowTypeEnum ; + rdfs:label "single-hung sash window" . + + a owl:Class, + nmdc_sub_schema:WindowVertPosEnum ; + rdfs:label "bottom" . + + a owl:Class, + nmdc_sub_schema:WindowVertPosEnum ; + rdfs:label "high" . + + a owl:Class, + nmdc_sub_schema:WindowVertPosEnum ; + rdfs:label "low" . + + a owl:Class, + nmdc_sub_schema:WindowVertPosEnum ; + rdfs:label "middle" . + + a owl:Class, + nmdc_sub_schema:WindowVertPosEnum ; + rdfs:label "top" . + + a owl:Class, + nmdc_sub_schema:YesNoEnum ; + rdfs:label "no" . + + a owl:Class, + nmdc_sub_schema:YesNoEnum ; + rdfs:label "yes" . + +nmdc_sub_schema:investigation_field a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "investigation field" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "field describing aspect of the investigation/study to which the sample belongs" . + +MIXS:0000028 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biotic_relationship" ; + dcterms:title "observed biotic relationship" ; + rdfs:range nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "observed biotic relationship" ; + skos:definition "Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object" ; + skos:exactMatch MIXS:0000028 ; + nmdc_sub_schema:expected_value "enumeration" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000096 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "barometric_press" ; + dcterms:title "barometric pressure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "barometric pressure" ; + skos:definition "Force per unit area exerted against a surface by the weight of air above that surface" ; + skos:exactMatch MIXS:0000096 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millibar" ; + linkml:is_a "core field" . + +MIXS:0000098 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "carb_monoxide" ; + dcterms:title "carbon monoxide" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "carbon monoxide" ; + skos:definition "Carbon monoxide (gas) amount or concentration at the time of sampling" ; + skos:exactMatch MIXS:0000098 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000100 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "humidity" ; + dcterms:title "humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "humidity" ; + skos:definition "Amount of water vapour in the air, at the time of sampling" ; + skos:exactMatch MIXS:0000100 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram per cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000104 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "oxygen" ; + dcterms:title "oxygen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "oxygen" ; + skos:definition "Oxygen (gas) amount or concentration at the time of sampling" ; + skos:exactMatch MIXS:0000104 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000107 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pollutants" ; + dcterms:title "pollutants" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pollutants" ; + skos:definition "Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant" ; + skos:exactMatch MIXS:0000107 ; + nmdc_sub_schema:expected_value "pollutant name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter, microgram per cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000108 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "air_PM_concen" ; + dcterms:title "air particulate matter concentration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "air particulate matter concentration" ; + skos:definition "Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM" ; + skos:exactMatch MIXS:0000108 ; + nmdc_sub_schema:expected_value "particulate matter name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "micrograms per cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000112 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "solar_irradiance" ; + dcterms:title "solar irradiance" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "solar irradiance" ; + skos:definition "The amount of solar energy that arrives at a specific area of a surface during a specific time interval" ; + skos:exactMatch MIXS:0000112 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "kilowatts per square meter per day, ergs per square centimeter per second" ; + linkml:is_a "core field" . + +MIXS:0000114 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ventilation_rate" ; + dcterms:title "ventilation rate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ventilation rate" ; + skos:definition "Ventilation rate of the system in the sampled premises" ; + skos:exactMatch MIXS:0000114 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cubic meter per minute, liters per second" ; + linkml:is_a "core field" . + +MIXS:0000115 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "volatile_org_comp" ; + dcterms:title "volatile organic compounds" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "volatile organic compounds" ; + skos:definition "Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound" ; + skos:exactMatch MIXS:0000115 ; + nmdc_sub_schema:expected_value "volatile organic compound name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "microgram per cubic meter, parts per million, nanogram per liter" ; + linkml:is_a "core field" . + +MIXS:0000118 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wind_speed" ; + dcterms:title "wind speed" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wind speed" ; + skos:definition "Speed of wind measured at the time of sampling" ; + skos:exactMatch MIXS:0000118 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter per second, kilometer per hour" ; + linkml:is_a "core field" . + +MIXS:0000121 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rel_air_humidity" ; + dcterms:title "relative air humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "relative air humidity" ; + skos:definition "Partial vapor and air pressure, density of the vapor and air, or by the actual mass of the vapor and air" ; + skos:exactMatch MIXS:0000121 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000122 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "abs_air_humidity" ; + dcterms:title "absolute air humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "absolute air humidity" ; + skos:definition "Actual mass of water vapor - mh20 - present in the air water vapor mixture" ; + skos:exactMatch MIXS:0000122 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram per gram, kilogram per kilogram, kilogram, pound" ; + linkml:is_a "core field" . + +MIXS:0000123 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_humidity" ; + dcterms:title "surface humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface humidity" ; + skos:definition "Surfaces: water activity as a function of air and material moisture" ; + skos:exactMatch MIXS:0000123 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000124 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "air_temp" ; + dcterms:title "air temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "air temperature" ; + skos:definition "Temperature of the air at the time of sampling" ; + skos:exactMatch MIXS:0000124 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000125 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_temp" ; + dcterms:title "surface temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface temperature" ; + skos:definition "Temperature of the surface at the time of sampling" ; + skos:exactMatch MIXS:0000125 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000128 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_moisture" ; + dcterms:title "surface moisture" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface moisture" ; + skos:definition "Water held on a surface" ; + skos:exactMatch MIXS:0000128 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "parts per million, gram per cubic meter, gram per square meter" ; + linkml:is_a "core field" . + +MIXS:0000129 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dew_point" ; + dcterms:title "dew point" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dew point" ; + skos:definition "The temperature to which a given parcel of humid air must be cooled, at constant barometric pressure, for water vapor to condense into water." ; + skos:exactMatch MIXS:0000129 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000136 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_loc_corr_rate" ; + dcterms:title "corrosion rate at sample location" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "corrosion rate at sample location" ; + skos:definition "Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays" ; + skos:exactMatch MIXS:0000136 ; + nmdc_sub_schema:expected_value "measurement value range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millimeter per year" ; + linkml:is_a "core field" . + +MIXS:0000140 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "amount_light" ; + dcterms:title "amount of light" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "amount of light" ; + skos:definition "The unit of illuminance and luminous emittance, measuring luminous flux per unit area" ; + skos:exactMatch MIXS:0000140 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "lux, lumens per square meter" ; + linkml:is_a "core field" . + +MIXS:0000141 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "avg_dew_point" ; + dcterms:title "average dew point" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "average dew point" ; + skos:definition "The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day" ; + skos:exactMatch MIXS:0000141 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000142 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "avg_temp" ; + dcterms:title "average temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "average temperature" ; + skos:definition "The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day" ; + skos:exactMatch MIXS:0000142 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000143 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_thermal_mass" ; + dcterms:title "ceiling thermal mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling thermal mass" ; + skos:definition "The ability of the ceiling to provide inertia against temperature fluctuations. Generally this means concrete that is exposed. A metal deck that supports a concrete slab will act thermally as long as it is exposed to room air flow" ; + skos:exactMatch MIXS:0000143 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "joule per degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000144 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "exp_duct" ; + dcterms:title "exposed ductwork" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "exposed ductwork" ; + skos:definition "The amount of exposed ductwork in the room" ; + skos:exactMatch MIXS:0000144 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000145 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "built_struc_age" ; + dcterms:title "built structure age" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "built structure age" ; + skos:definition "The age of the built structure since construction" ; + skos:exactMatch MIXS:0000145 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "year" ; + linkml:is_a "core field" . + +MIXS:0000148 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_area" ; + dcterms:title "ceiling area" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling area" ; + skos:definition "The area of the ceiling space within the room" ; + skos:exactMatch MIXS:0000148 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000158 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_size" ; + dcterms:title "door area or size" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door area or size" ; + skos:definition "The size of the door" ; + skos:exactMatch MIXS:0000158 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000164 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_age" ; + dcterms:title "floor age" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor age" ; + skos:definition "The time period since installment of the carpet or flooring" ; + skos:exactMatch MIXS:0000164 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "years, weeks, days" ; + linkml:is_a "core field" . + +MIXS:0000165 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_area" ; + dcterms:title "floor area" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor area" ; + skos:definition "The area of the floor space within the room" ; + skos:exactMatch MIXS:0000165 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000166 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_thermal_mass" ; + dcterms:title "floor thermal mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor thermal mass" ; + skos:definition "The ability of the floor to provide inertia against temperature fluctuations" ; + skos:exactMatch MIXS:0000166 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "joule per degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000167 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "height_carper_fiber" ; + dcterms:title "height carpet fiber mat" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "height carpet fiber mat" ; + skos:definition "The average carpet fiber height in the indoor environment" ; + skos:exactMatch MIXS:0000167 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "centimeter" ; + linkml:is_a "core field" . + +MIXS:0000168 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "inside_lux" ; + dcterms:title "inside lux light" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "inside lux light" ; + skos:definition "The recorded value at sampling time (power density)" ; + skos:exactMatch MIXS:0000168 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "kilowatt per square metre" ; + linkml:is_a "core field" . + +MIXS:0000169 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_air_exch_rate" ; + dcterms:title "room air exchange rate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room air exchange rate" ; + skos:definition "The rate at which outside air replaces indoor air in a given space" ; + skos:exactMatch MIXS:0000169 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "liter per hour" ; + linkml:is_a "core field" . + +MIXS:0000170 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ext_door" ; + dcterms:title "exterior door count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "exterior door count" ; + skos:definition "The number of exterior doors in the built structure" ; + skos:exactMatch MIXS:0000170 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000188 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rel_humidity_out" ; + dcterms:title "outside relative humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "outside relative humidity" ; + skos:definition "The recorded outside relative humidity value at the time of sampling" ; + skos:exactMatch MIXS:0000188 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram of air, kilogram of air" ; + linkml:is_a "core field" . + +MIXS:0000192 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_dim" ; + dcterms:title "room dimensions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room dimensions" ; + skos:definition "The length, width and height of sampling room" ; + skos:exactMatch MIXS:0000192 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000193 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_door_dist" ; + dcterms:title "room door distance" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room door distance" ; + skos:definition "Distance between doors (meters) in the hallway between the sampling room and adjacent rooms" ; + skos:exactMatch MIXS:0000193 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000194 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_net_area" ; + dcterms:title "room net area" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room net area" ; + skos:definition "The net floor area of sampling room. Net area excludes wall thicknesses" ; + skos:exactMatch MIXS:0000194 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square feet, square meter" ; + linkml:is_a "core field" . + +MIXS:0000195 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_vol" ; + dcterms:title "room volume" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room volume" ; + skos:definition "Volume of sampling room" ; + skos:exactMatch MIXS:0000195 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cubic feet, cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000196 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_time_out" ; + dcterms:title "sampling time outside" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sampling time outside" ; + skos:definition "The recent and long term history of outside sampling" ; + skos:exactMatch MIXS:0000196 ; + nmdc_sub_schema:expected_value "time" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "hour" ; + linkml:is_a "core field" . + +MIXS:0000197 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "temp_out" ; + dcterms:title "temperature outside house" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "temperature outside house" ; + skos:definition "The recorded temperature value at sampling time outside" ; + skos:exactMatch MIXS:0000197 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000198 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_area" ; + dcterms:title "wall area" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall area" ; + skos:definition "The total area of the sampled room's walls" ; + skos:exactMatch MIXS:0000198 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000206 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "particle_class" ; + dcterms:title "particle classification" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "particle classification" ; + skos:definition "Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values" ; + skos:exactMatch MIXS:0000206 ; + nmdc_sub_schema:expected_value "particle name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "micrometer" ; + linkml:is_a "core field" . + +MIXS:0000214 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "specific_humidity" ; + dcterms:title "specific humidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "specific humidity" ; + skos:definition "The mass of water vapour in a unit mass of moist air, usually expressed as grams of vapour per kilogram of air, or, in air conditioning, as grains per pound." ; + skos:exactMatch MIXS:0000214 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram of air, kilogram of air" ; + linkml:is_a "core field" . + +MIXS:0000215 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sewage_type" ; + dcterms:title "sewage type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sewage type" ; + skos:definition "Type of wastewater treatment plant as municipial or industrial" ; + skos:exactMatch MIXS:0000215 ; + nmdc_sub_schema:expected_value "sewage type name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000216 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_sort_meth" ; + dcterms:title "sample size sorting method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample size sorting method" ; + skos:definition "Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor." ; + skos:exactMatch MIXS:0000216 ; + nmdc_sub_schema:expected_value "description of method" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000217 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "occup_density_samp" ; + dcterms:title "occupant density at sampling" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "occupant density at sampling" ; + skos:definition "Average number of occupants at time of sampling per square footage" ; + skos:exactMatch MIXS:0000217 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000218 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "address" ; + dcterms:title "address" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "address" ; + skos:definition "The street name and building number where the sampling occurred." ; + skos:exactMatch MIXS:0000218 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000219 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "adj_room" ; + dcterms:title "adjacent rooms" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "adjacent rooms" ; + skos:definition "List of rooms (room number, room name) immediately adjacent to the sampling room" ; + skos:exactMatch MIXS:0000219 ; + nmdc_sub_schema:expected_value "room name;room number" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000220 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "exp_pipe" ; + dcterms:title "exposed pipes" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "exposed pipes" ; + skos:definition "The number of exposed pipes in the room" ; + skos:exactMatch MIXS:0000220 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000221 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_height" ; + dcterms:title "wall height" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall height" ; + skos:definition "The average height of the walls in the sampled room" ; + skos:exactMatch MIXS:0000221 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "centimeter" ; + linkml:is_a "core field" . + +MIXS:0000222 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_thermal_mass" ; + dcterms:title "wall thermal mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall thermal mass" ; + skos:definition "The ability of the wall to provide inertia against temperature fluctuations. Generally this means concrete or concrete block that is either exposed or covered only with paint" ; + skos:exactMatch MIXS:0000222 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "joule per degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000223 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_feat_size" ; + dcterms:title "water feature size" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water feature size" ; + skos:definition "The size of the water feature" ; + skos:exactMatch MIXS:0000223 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "square meter" ; + linkml:is_a "core field" . + +MIXS:0000224 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_size" ; + dcterms:title "window area/size" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window area/size" ; + skos:definition "The window's length and width" ; + skos:exactMatch MIXS:0000224 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "inch, meter" ; + linkml:is_a "core field" . + +MIXS:0000225 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_count" ; + dcterms:title "floor count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor count" ; + skos:definition "The number of floors in the building, including basements and mechanical penthouse" ; + skos:exactMatch MIXS:0000225 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000226 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "freq_clean" ; + dcterms:title "frequency of cleaning" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "frequency of cleaning" ; + skos:definition "The number of times the sample location is cleaned. Frequency of cleaning might be on a Daily basis, Weekly, Monthly, Quarterly or Annually." ; + skos:exactMatch MIXS:0000226 ; + nmdc_sub_schema:expected_value "enumeration or {text}" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000227 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "freq_cook" ; + dcterms:title "frequency of cooking" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "frequency of cooking" ; + skos:definition "The number of times a meal is cooked per week" ; + skos:exactMatch MIXS:0000227 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000228 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hall_count" ; + dcterms:title "hallway/corridor count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hallway/corridor count" ; + skos:definition "The total count of hallways and cooridors in the built structure" ; + skos:exactMatch MIXS:0000228 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000229 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "max_occup" ; + dcterms:title "maximum occupancy" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "maximum occupancy" ; + skos:definition "The maximum amount of people allowed in the indoor environment" ; + skos:exactMatch MIXS:0000229 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000230 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "number_plants" ; + dcterms:title "number of houseplants" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "number of houseplants" ; + skos:definition "The number of plant(s) in the sampling space" ; + skos:exactMatch MIXS:0000230 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000231 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "number_pets" ; + dcterms:title "number of pets" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "number of pets" ; + skos:definition "The number of pets residing in the sampled space" ; + skos:exactMatch MIXS:0000231 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000232 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "number_resident" ; + dcterms:title "number of residents" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "number of residents" ; + skos:definition "The number of individuals currently occupying in the sampling location" ; + skos:exactMatch MIXS:0000232 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000233 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_architec_elem" ; + dcterms:title "room architectural elements" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room architectural elements" ; + skos:definition "The unique details and component parts that, together, form the architecture of a distinguisahable space within a built structure" ; + skos:exactMatch MIXS:0000233 ; + nmdc_sub_schema:expected_value "free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000234 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_count" ; + dcterms:title "room count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room count" ; + skos:definition "The total count of rooms in the built structure including all room types" ; + skos:exactMatch MIXS:0000234 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000235 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_moist_dam_hist" ; + dcterms:title "room moisture damage or mold history" ; + rdfs:range nmdc_sub_schema:Integer ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room moisture damage or mold history" ; + skos:definition "The history of moisture damage or mold in the past 12 months. Number of events of moisture damage or mold observed" ; + skos:exactMatch MIXS:0000235 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000236 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_occup" ; + dcterms:title "room occupancy" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room occupancy" ; + skos:definition "Count of room occupancy at time of sampling" ; + skos:exactMatch MIXS:0000236 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000237 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_window_count" ; + dcterms:title "room window count" ; + rdfs:range nmdc_sub_schema:Integer ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room window count" ; + skos:definition "Number of windows in the room" ; + skos:exactMatch MIXS:0000237 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000238 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_hallway" ; + dcterms:title "rooms that are on the same hallway" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooms that are on the same hallway" ; + skos:definition "List of room(s) (room number, room name) located in the same hallway as sampling room" ; + skos:exactMatch MIXS:0000238 ; + nmdc_sub_schema:expected_value "room name;room number" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000242 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_door_share" ; + dcterms:title "rooms that share a door with sampling room" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooms that share a door with sampling room" ; + skos:definition "List of room(s) (room number, room name) sharing a door with the sampling room" ; + skos:exactMatch MIXS:0000242 ; + nmdc_sub_schema:expected_value "room name;room number" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000243 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_wall_share" ; + dcterms:title "rooms that share a wall with sampling room" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooms that share a wall with sampling room" ; + skos:definition "List of room(s) (room number, room name) sharing a wall with the sampling room" ; + skos:exactMatch MIXS:0000243 ; + nmdc_sub_schema:expected_value "room name;room number" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000244 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_room_id" ; + dcterms:title "sampling room ID or name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sampling room ID or name" ; + skos:definition "Sampling room number. This ID should be consistent with the designations on the building floor plans" ; + skos:exactMatch MIXS:0000244 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000245 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "shading_device_mat" ; + dcterms:title "shading device material" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "shading device material" ; + skos:definition "The material the shading device is composed of" ; + skos:exactMatch MIXS:0000245 ; + nmdc_sub_schema:expected_value "material name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000246 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_open_freq" ; + dcterms:title "window open frequency" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window open frequency" ; + skos:definition "The number of times windows are opened per week" ; + skos:exactMatch MIXS:0000246 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000252 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_substrate" ; + dcterms:title "host substrate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host substrate" ; + skos:definition "The growth substrate of the host." ; + skos:exactMatch MIXS:0000252 ; + nmdc_sub_schema:expected_value "substrate name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000258 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "blood_press_diast" ; + dcterms:title "host blood pressure diastolic" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host blood pressure diastolic" ; + skos:definition "Resting diastolic blood pressure, measured as mm mercury" ; + skos:exactMatch MIXS:0000258 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millimeter mercury" ; + linkml:is_a "core field" . + +MIXS:0000259 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "blood_press_syst" ; + dcterms:title "host blood pressure systolic" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host blood pressure systolic" ; + skos:definition "Resting systolic blood pressure, measured as mm mercury" ; + skos:exactMatch MIXS:0000259 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millimeter mercury" ; + linkml:is_a "core field" . + +MIXS:0000260 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_color" ; + dcterms:title "host color" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host color" ; + skos:definition "The color of host" ; + skos:exactMatch MIXS:0000260 ; + nmdc_sub_schema:expected_value "color" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000261 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_shape" ; + dcterms:title "host shape" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host shape" ; + skos:definition "Morphological shape of host" ; + skos:exactMatch MIXS:0000261 ; + nmdc_sub_schema:expected_value "shape" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000274 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_body_temp" ; + dcterms:title "host body temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host body temperature" ; + skos:definition "Core body temperature of the host when sample was collected" ; + skos:exactMatch MIXS:0000274 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000312 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "cur_vegetation" ; + dcterms:title "current vegetation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "current vegetation" ; + skos:definition "Vegetation classification from one or more standard classification systems, or agricultural crop" ; + skos:exactMatch MIXS:0000312 ; + nmdc_sub_schema:expected_value "current vegetation type" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000314 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "cur_vegetation_meth" ; + dcterms:title "current vegetation method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "current vegetation method" ; + skos:definition "Reference or method used in vegetation classification" ; + skos:exactMatch MIXS:0000314 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000315 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "previous_land_use" ; + dcterms:title "history/previous land use" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/previous land use" ; + skos:definition "Previous land use and dates" ; + skos:exactMatch MIXS:0000315 ; + nmdc_sub_schema:expected_value "land use name;date" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000316 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "prev_land_use_meth" ; + dcterms:title "history/previous land use method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/previous land use method" ; + skos:definition "Reference or method used in determining previous land use and dates" ; + skos:exactMatch MIXS:0000316 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000318 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "crop_rotation" ; + dcterms:title "history/crop rotation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/crop rotation" ; + skos:definition "Whether or not crop is rotated, and if yes, rotation schedule" ; + skos:exactMatch MIXS:0000318 ; + nmdc_sub_schema:expected_value "crop rotation status;schedule" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000319 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "flooding" ; + dcterms:title "history/flooding" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/flooding" ; + skos:definition "Historical and/or physical evidence of flooding" ; + skos:exactMatch MIXS:0000319 ; + nmdc_sub_schema:expected_value "date" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000320 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "extreme_event" ; + dcterms:title "history/extreme events" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/extreme events" ; + skos:definition "Unusual physical events that may have affected microbial populations" ; + skos:exactMatch MIXS:0000320 ; + nmdc_sub_schema:expected_value "date" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000322 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sieving" ; + dcterms:title "composite design/sieving" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "composite design/sieving" ; + skos:definition "Collection design of pooled samples and/or sieve size and amount of sample sieved" ; + skos:exactMatch MIXS:0000322 ; + nmdc_sub_schema:expected_value "design name and/or size;amount" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000323 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_cont_soil_meth" ; + dcterms:title "water content method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water content method" ; + skos:definition "Reference or method used in determining the water content of soil" ; + skos:exactMatch MIXS:0000323 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000324 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "al_sat_meth" ; + dcterms:title "extreme_unusual_properties/Al saturation method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "extreme_unusual_properties/Al saturation method" ; + skos:definition "Reference or method used in determining Al saturation" ; + skos:exactMatch MIXS:0000324 ; + nmdc_sub_schema:expected_value "PMID,DOI or URL" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000327 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "store_cond" ; + dcterms:title "storage conditions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "storage conditions" ; + skos:definition "Explain how and for how long the soil sample was stored before DNA extraction (fresh/frozen/other)." ; + skos:exactMatch MIXS:0000327 ; + nmdc_sub_schema:expected_value "storage condition type;duration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000328 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "link_climate_info" ; + dcterms:title "link to climate information" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "link to climate information" ; + skos:definition "Link to climate resource" ; + skos:exactMatch MIXS:0000328 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000329 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "link_class_info" ; + dcterms:title "link to classification information" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "link to classification information" ; + skos:definition "Link to digitized soil maps or other soil classification information" ; + skos:exactMatch MIXS:0000329 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000330 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "local_class" ; + dcterms:title "soil_taxonomic/local classification" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil_taxonomic/local classification" ; + skos:definition "Soil classification based on local soil classification system" ; + skos:exactMatch MIXS:0000330 ; + nmdc_sub_schema:expected_value "local classification name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000331 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "local_class_meth" ; + dcterms:title "soil_taxonomic/local classification method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil_taxonomic/local classification method" ; + skos:definition "Reference or method used in determining the local soil classification" ; + skos:exactMatch MIXS:0000331 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000332 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_type" ; + dcterms:title "soil type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil type" ; + skos:definition "Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes." ; + skos:exactMatch MIXS:0000332 ; + nmdc_sub_schema:expected_value "ENVO_00001998" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000334 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_type_meth" ; + dcterms:title "soil type method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil type method" ; + skos:definition "Reference or method used in determining soil series name or other lower-level classification" ; + skos:exactMatch MIXS:0000334 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000335 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_text_measure" ; + dcterms:title "soil texture measurement" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil texture measurement" ; + skos:definition "The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional." ; + skos:exactMatch MIXS:0000335 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000336 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_texture_meth" ; + dcterms:title "soil texture method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil texture method" ; + skos:definition "Reference or method used in determining soil texture" ; + skos:exactMatch MIXS:0000336 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000337 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_org_c_meth" ; + dcterms:title "total organic carbon method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total organic carbon method" ; + skos:definition "Reference or method used in determining total organic carbon" ; + skos:exactMatch MIXS:0000337 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000338 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_nitro_cont_meth" ; + dcterms:title "total nitrogen content method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total nitrogen content method" ; + skos:definition "Reference or method used in determining the total nitrogen" ; + skos:exactMatch MIXS:0000338 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000339 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "micro_biomass_meth" ; + dcterms:title "microbial biomass method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "microbial biomass method" ; + skos:definition "Reference or method used in determining microbial biomass" ; + skos:exactMatch MIXS:0000339 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000341 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "salinity_meth" ; + dcterms:title "salinity method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "salinity method" ; + skos:definition "Reference or method used in determining salinity" ; + skos:exactMatch MIXS:0000341 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000343 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heavy_metals_meth" ; + dcterms:title "extreme_unusual_properties/heavy metals method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "extreme_unusual_properties/heavy metals method" ; + skos:definition "Reference or method used in determining heavy metals" ; + skos:exactMatch MIXS:0000343 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000348 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pre_treatment" ; + dcterms:title "pre-treatment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pre-treatment" ; + skos:definition "The process of pre-treatment removes materials that can be easily collected from the raw wastewater" ; + skos:exactMatch MIXS:0000348 ; + nmdc_sub_schema:expected_value "pre-treatment type" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000349 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "primary_treatment" ; + dcterms:title "primary treatment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "primary treatment" ; + skos:definition "The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed" ; + skos:exactMatch MIXS:0000349 ; + nmdc_sub_schema:expected_value "primary treatment type" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000350 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "reactor_type" ; + dcterms:title "reactor type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "reactor type" ; + skos:definition "Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage" ; + skos:exactMatch MIXS:0000350 ; + nmdc_sub_schema:expected_value "reactor type name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000351 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "secondary_treatment" ; + dcterms:title "secondary treatment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "secondary treatment" ; + skos:definition "The process for substantially degrading the biological content of the sewage" ; + skos:exactMatch MIXS:0000351 ; + nmdc_sub_schema:expected_value "secondary treatment type" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000352 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tertiary_treatment" ; + dcterms:title "tertiary treatment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "tertiary treatment" ; + skos:definition "The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment" ; + skos:exactMatch MIXS:0000352 ; + nmdc_sub_schema:expected_value "tertiary treatment type" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000353 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wastewater_type" ; + dcterms:title "wastewater type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wastewater type" ; + skos:definition "The origin of wastewater such as human waste, rainfall, storm drains, etc." ; + skos:exactMatch MIXS:0000353 ; + nmdc_sub_schema:expected_value "wastewater type name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000404 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "permeability" ; + dcterms:title "permeability" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "permeability" ; + skos:definition "Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))" ; + skos:exactMatch MIXS:0000404 ; + nmdc_sub_schema:expected_value "measurement value range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mD" ; + linkml:is_a "core field" . + +MIXS:0000405 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "owc_tvdss" ; + dcterms:title "oil water contact depth" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "oil water contact depth" ; + skos:definition "Depth of the original oil water contact (OWC) zone (average) (m TVDSS)" ; + skos:exactMatch MIXS:0000405 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000409 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_tvdss" ; + dcterms:title "sample true vertical depth subsea" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample true vertical depth subsea" ; + skos:definition "Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m" ; + skos:exactMatch MIXS:0000409 ; + nmdc_sub_schema:expected_value "measurement value or measurement value range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000413 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_md" ; + dcterms:title "sample measured depth" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample measured depth" ; + skos:definition "In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000413 ; + nmdc_sub_schema:expected_value "measurement value;enumeration" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000452 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "prod_rate" ; + dcterms:title "production rate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "production rate" ; + skos:definition "Oil and/or gas production rates per well (e.g. 524 m3 / day)" ; + skos:exactMatch MIXS:0000452 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cubic meter per day" ; + linkml:is_a "core field" . + +MIXS:0000453 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_prod_rate" ; + dcterms:title "water production rate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water production rate" ; + skos:definition "Water production rates per well (e.g. 987 m3 / day)" ; + skos:exactMatch MIXS:0000453 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cubic meter per day" ; + linkml:is_a "core field" . + +MIXS:0000454 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_cut" ; + dcterms:title "water cut" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water cut" ; + skos:definition "Current amount of water (%) in a produced fluid stream; or the average of the combined streams" ; + skos:exactMatch MIXS:0000454 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000455 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "iwf" ; + dcterms:title "injection water fraction" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "injection water fraction" ; + skos:definition "Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%)" ; + skos:exactMatch MIXS:0000455 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000456 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biocide_admin_method" ; + dcterms:title "biocide administration method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biocide administration method" ; + skos:definition "Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; weekly; 4 hr; 3 days)" ; + skos:exactMatch MIXS:0000456 ; + nmdc_sub_schema:expected_value "measurement value;frequency;duration;duration" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000457 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chem_treat_method" ; + dcterms:title "chemical treatment method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chemical treatment method" ; + skos:definition "Method of chemical administration(dose, frequency, duration, time elapsed between administration and sampling) (e.g. 50 mg/l; twice a week; 1 hr; 0 days)" ; + skos:exactMatch MIXS:0000457 ; + nmdc_sub_schema:expected_value "measurement value;frequency;duration;duration" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000463 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_preserv" ; + dcterms:title "preservative added to sample" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "preservative added to sample" ; + skos:definition "Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml)" ; + skos:exactMatch MIXS:0000463 ; + nmdc_sub_schema:expected_value "name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milliliter" ; + linkml:is_a "core field" . + +MIXS:0000553 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "antibiotic_regm" ; + dcterms:title "antibiotic regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "antibiotic regimen" ; + skos:definition "Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens" ; + skos:exactMatch MIXS:0000553 ; + nmdc_sub_schema:expected_value "antibiotic name;antibiotic amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "milligram" ; + linkml:is_a "core field" . + +MIXS:0000555 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chem_mutagen" ; + dcterms:title "chemical mutagen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chemical mutagen" ; + skos:definition "Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens" ; + skos:exactMatch MIXS:0000555 ; + nmdc_sub_schema:expected_value "mutagen name;mutagen amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000556 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fertilizer_regm" ; + dcterms:title "fertilizer regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "fertilizer regimen" ; + skos:definition "Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens" ; + skos:exactMatch MIXS:0000556 ; + nmdc_sub_schema:expected_value "fertilizer name;fertilizer amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000557 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fungicide_regm" ; + dcterms:title "fungicide regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "fungicide regimen" ; + skos:definition "Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens" ; + skos:exactMatch MIXS:0000557 ; + nmdc_sub_schema:expected_value "fungicide name;fungicide amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000559 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gravity" ; + dcterms:title "gravity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "gravity" ; + skos:definition "Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments" ; + skos:exactMatch MIXS:0000559 ; + nmdc_sub_schema:expected_value "gravity factor value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "meter per square second, g" ; + linkml:is_a "core field" . + +MIXS:0000560 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "growth_hormone_regm" ; + dcterms:title "growth hormone regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "growth hormone regimen" ; + skos:definition "Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens" ; + skos:exactMatch MIXS:0000560 ; + nmdc_sub_schema:expected_value "growth hormone name;growth hormone amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000561 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "herbicide_regm" ; + dcterms:title "herbicide regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "herbicide regimen" ; + skos:definition "Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0000561 ; + nmdc_sub_schema:expected_value "herbicide name;herbicide amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000567 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_wet_mass" ; + dcterms:title "host wet mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host wet mass" ; + skos:definition "Measurement of wet mass" ; + skos:exactMatch MIXS:0000567 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "kilogram, gram" ; + linkml:is_a "core field" . + +MIXS:0000570 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mineral_nutr_regm" ; + dcterms:title "mineral nutrient regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mineral nutrient regimen" ; + skos:definition "Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens" ; + skos:exactMatch MIXS:0000570 ; + nmdc_sub_schema:expected_value "mineral nutrient name;mineral nutrient amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000571 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "non_min_nutr_regm" ; + dcterms:title "non-mineral nutrient regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "non-mineral nutrient regimen" ; + skos:definition "Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens" ; + skos:exactMatch MIXS:0000571 ; + nmdc_sub_schema:expected_value "non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000573 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pesticide_regm" ; + dcterms:title "pesticide regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pesticide regimen" ; + skos:definition "Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens" ; + skos:exactMatch MIXS:0000573 ; + nmdc_sub_schema:expected_value "pesticide name;pesticide amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000575 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "radiation_regm" ; + dcterms:title "radiation regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "radiation regimen" ; + skos:definition "Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens" ; + skos:exactMatch MIXS:0000575 ; + nmdc_sub_schema:expected_value "radiation type name;radiation amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "rad, gray" ; + linkml:is_a "core field" . + +MIXS:0000576 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rainfall_regm" ; + dcterms:title "rainfall regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rainfall regimen" ; + skos:definition "Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0000576 ; + nmdc_sub_schema:expected_value "measurement value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "millimeter" ; + linkml:is_a "core field" . + +MIXS:0000577 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_carbon" ; + dcterms:title "rooting medium carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium carbon" ; + skos:definition "Source of organic carbon in the culture rooting medium; e.g. sucrose." ; + skos:exactMatch MIXS:0000577 ; + nmdc_sub_schema:expected_value "carbon source name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000578 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_macronutr" ; + dcterms:title "rooting medium macronutrients" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium macronutrients" ; + skos:definition "Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L)." ; + skos:exactMatch MIXS:0000578 ; + nmdc_sub_schema:expected_value "macronutrient name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000579 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_micronutr" ; + dcterms:title "rooting medium micronutrients" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium micronutrients" ; + skos:definition "Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L)." ; + skos:exactMatch MIXS:0000579 ; + nmdc_sub_schema:expected_value "micronutrient name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000580 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_suppl" ; + dcterms:title "rooting medium organic supplements" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium organic supplements" ; + skos:definition "Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L)." ; + skos:exactMatch MIXS:0000580 ; + nmdc_sub_schema:expected_value "supplement name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000581 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_regl" ; + dcterms:title "rooting medium regulators" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium regulators" ; + skos:definition "Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA." ; + skos:exactMatch MIXS:0000581 ; + nmdc_sub_schema:expected_value "regulator name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000582 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "salt_regm" ; + dcterms:title "salt regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "salt regimen" ; + skos:definition "Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens" ; + skos:exactMatch MIXS:0000582 ; + nmdc_sub_schema:expected_value "salt name;salt amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, microgram, mole per liter, gram per liter" ; + linkml:is_a "core field" . + +MIXS:0000590 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_temp_regm" ; + dcterms:title "water temperature regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water temperature regimen" ; + skos:definition "Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0000590 ; + nmdc_sub_schema:expected_value "measurement value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000607 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "al_sat" ; + dcterms:title "extreme_unusual_properties/Al saturation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "extreme_unusual_properties/Al saturation" ; + skos:definition "Aluminum saturation (esp. For tropical soils)" ; + skos:exactMatch MIXS:0000607 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000639 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "agrochem_addition" ; + dcterms:title "history/agrochemical additions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/agrochemical additions" ; + skos:definition "Addition of fertilizers, pesticides, etc. - amount and time of applications" ; + skos:exactMatch MIXS:0000639 ; + nmdc_sub_schema:expected_value "agrochemical name;agrochemical amount;timestamp" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000642 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "annual_temp" ; + dcterms:title "mean annual temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean annual temperature" ; + skos:definition "Mean annual temperature" ; + skos:exactMatch MIXS:0000642 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000643 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "season_temp" ; + dcterms:title "mean seasonal temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean seasonal temperature" ; + skos:definition "Mean seasonal temperature" ; + skos:exactMatch MIXS:0000643 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000644 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "annual_precpt" ; + dcterms:title "mean annual precipitation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean annual precipitation" ; + skos:definition "The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps." ; + skos:exactMatch MIXS:0000644 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millimeter" ; + linkml:is_a "core field" . + +MIXS:0000645 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "season_precpt" ; + dcterms:title "mean seasonal precipitation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean seasonal precipitation" ; + skos:definition "The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps." ; + skos:exactMatch MIXS:0000645 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millimeter" ; + linkml:is_a "core field" . + +MIXS:0000646 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "slope_gradient" ; + dcterms:title "slope gradient" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "slope gradient" ; + skos:definition "Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer" ; + skos:exactMatch MIXS:0000646 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000647 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "slope_aspect" ; + dcterms:title "slope aspect" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "slope aspect" ; + skos:definition "The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees); e.g., nw or 315 degrees. This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration." ; + skos:exactMatch MIXS:0000647 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree" ; + linkml:is_a "core field" . + +MIXS:0000650 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "microbial_biomass" ; + dcterms:title "microbial biomass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "microbial biomass" ; + skos:definition "The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. If you keep this, you would need to have correction factors used for conversion to the final units" ; + skos:exactMatch MIXS:0000650 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "ton, kilogram, gram per kilogram soil" ; + linkml:is_a "core field" . + +MIXS:0000652 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heavy_metals" ; + dcterms:title "extreme_unusual_properties/heavy metals" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "extreme_unusual_properties/heavy metals" ; + skos:definition "Heavy metals present in the sequenced sample and their concentrations. For multiple heavy metals and concentrations, add multiple copies of this field." ; + skos:exactMatch MIXS:0000652 ; + nmdc_sub_schema:expected_value "heavy metal name;measurement value unit" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "microgram per gram" ; + linkml:is_a "core field" . + +MIXS:0000653 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biochem_oxygen_dem" ; + dcterms:title "biochemical oxygen demand" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biochemical oxygen demand" ; + skos:definition "Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period" ; + skos:exactMatch MIXS:0000653 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000656 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chem_oxygen_dem" ; + dcterms:title "chemical oxygen demand" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chemical oxygen demand" ; + skos:definition "A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite" ; + skos:exactMatch MIXS:0000656 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000657 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "efficiency_percent" ; + dcterms:title "efficiency percent" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "efficiency percent" ; + skos:definition "Percentage of volatile solids removed from the anaerobic digestor" ; + skos:exactMatch MIXS:0000657 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000660 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "emulsions" ; + dcterms:title "emulsions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "emulsions" ; + skos:definition "Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types" ; + skos:exactMatch MIXS:0000660 ; + nmdc_sub_schema:expected_value "emulsion name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram per liter" ; + linkml:is_a "core field" . + +MIXS:0000661 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gaseous_substances" ; + dcterms:title "gaseous substances" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "gaseous substances" ; + skos:definition "Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances" ; + skos:exactMatch MIXS:0000661 ; + nmdc_sub_schema:expected_value "gaseous substance name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000662 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "indust_eff_percent" ; + dcterms:title "industrial effluent percent" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "industrial effluent percent" ; + skos:definition "Percentage of industrial effluents received by wastewater treatment plant" ; + skos:exactMatch MIXS:0000662 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000664 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "inorg_particles" ; + dcterms:title "inorganic particles" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "inorganic particles" ; + skos:definition "Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles" ; + skos:exactMatch MIXS:0000664 ; + nmdc_sub_schema:expected_value "inorganic particle name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "mole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000665 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_particles" ; + dcterms:title "organic particles" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organic particles" ; + skos:definition "Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc." ; + skos:exactMatch MIXS:0000665 ; + nmdc_sub_schema:expected_value "particle name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram per liter" ; + linkml:is_a "core field" . + +MIXS:0000669 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sludge_retent_time" ; + dcterms:title "sludge retention time" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sludge retention time" ; + skos:definition "The time activated sludge remains in reactor" ; + skos:exactMatch MIXS:0000669 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "hours" ; + linkml:is_a "core field" . + +MIXS:0000672 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soluble_inorg_mat" ; + dcterms:title "soluble inorganic material" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soluble inorganic material" ; + skos:definition "Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc." ; + skos:exactMatch MIXS:0000672 ; + nmdc_sub_schema:expected_value "soluble inorganic material name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, microgram, mole per liter, gram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000673 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soluble_org_mat" ; + dcterms:title "soluble organic material" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soluble organic material" ; + skos:definition "Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc." ; + skos:exactMatch MIXS:0000673 ; + nmdc_sub_schema:expected_value "soluble organic material name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, microgram, mole per liter, gram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000683 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bac_prod" ; + dcterms:title "bacterial production" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bacterial production" ; + skos:definition "Bacterial production in the water column measured by isotope uptake" ; + skos:exactMatch MIXS:0000683 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per cubic meter per day" ; + linkml:is_a "core field" . + +MIXS:0000684 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bac_resp" ; + dcterms:title "bacterial respiration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bacterial respiration" ; + skos:definition "Measurement of bacterial respiration in the water column" ; + skos:exactMatch MIXS:0000684 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per cubic meter per day, micromole oxygen per liter per hour" ; + linkml:is_a "core field" . + +MIXS:0000689 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_phosphate" ; + dcterms:title "total phosphate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total phosphate" ; + skos:definition "Total amount or concentration of phosphate" ; + skos:exactMatch MIXS:0000689 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000692 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "conduc" ; + dcterms:title "conductivity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "conductivity" ; + skos:definition "Electrical conductivity of water" ; + skos:exactMatch MIXS:0000692 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milliSiemens per centimeter" ; + linkml:is_a "core field" . + +MIXS:0000698 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_inorg_nitro" ; + dcterms:title "dissolved inorganic nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved inorganic nitrogen" ; + skos:definition "Concentration of dissolved inorganic nitrogen" ; + skos:exactMatch MIXS:0000698 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000703 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "down_par" ; + dcterms:title "downward PAR" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "downward PAR" ; + skos:definition "Visible waveband radiance and irradiance measurements in the water column" ; + skos:exactMatch MIXS:0000703 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microEinstein per square meter per second, microEinstein per square centimeter per second" ; + linkml:is_a "core field" . + +MIXS:0000704 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fluor" ; + dcterms:title "fluorescence" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "fluorescence" ; + skos:definition "Raw or converted fluorescence of water" ; + skos:exactMatch MIXS:0000704 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram chlorophyll a per cubic meter, volts" ; + linkml:is_a "core field" . + +MIXS:0000706 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "light_intensity" ; + dcterms:title "light intensity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "light intensity" ; + skos:definition "Measurement of light intensity" ; + skos:exactMatch MIXS:0000706 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "lux" ; + linkml:is_a "core field" . + +MIXS:0000719 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "part_org_nitro" ; + dcterms:title "particulate organic nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "particulate organic nitrogen" ; + skos:definition "Concentration of particulate organic nitrogen" ; + skos:exactMatch MIXS:0000719 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000721 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "built_struc_type" ; + dcterms:title "built structure type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "built structure type" ; + skos:definition "A physical structure that is a body or assemblage of bodies in space to form a system capable of supporting loads" ; + skos:exactMatch MIXS:0000721 ; + nmdc_sub_schema:expected_value "free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000725 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "photon_flux" ; + dcterms:title "photon flux" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "photon flux" ; + skos:definition "Measurement of photon flux" ; + skos:exactMatch MIXS:0000725 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "number of photons per second per unit area" ; + linkml:is_a "core field" . + +MIXS:0000728 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "primary_prod" ; + dcterms:title "primary production" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "primary production" ; + skos:definition "Measurement of primary production, generally measured as isotope uptake" ; + skos:exactMatch MIXS:0000728 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per cubic meter per day, gram per square meter per day" ; + linkml:is_a "core field" . + +MIXS:0000738 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soluble_react_phosp" ; + dcterms:title "soluble reactive phosphorus" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soluble reactive phosphorus" ; + skos:definition "Concentration of soluble reactive phosphorus" ; + skos:exactMatch MIXS:0000738 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000741 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "suspend_part_matter" ; + dcterms:title "suspended particulate matter" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "suspended particulate matter" ; + skos:definition "Concentration of suspended particulate matter" ; + skos:exactMatch MIXS:0000741 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000744 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_diss_nitro" ; + dcterms:title "total dissolved nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total dissolved nitrogen" ; + skos:definition "Total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen" ; + skos:exactMatch MIXS:0000744 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000745 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_inorg_nitro" ; + dcterms:title "total inorganic nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total inorganic nitrogen" ; + skos:definition "Total inorganic nitrogen content" ; + skos:exactMatch MIXS:0000745 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000747 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_part_carb" ; + dcterms:title "total particulate carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total particulate carbon" ; + skos:definition "Total particulate carbon content" ; + skos:exactMatch MIXS:0000747 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000757 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wind_direction" ; + dcterms:title "wind direction" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wind direction" ; + skos:definition "Wind direction is the direction from which a wind originates" ; + skos:exactMatch MIXS:0000757 ; + nmdc_sub_schema:expected_value "wind direction name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000758 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_material" ; + dcterms:title "surface material" ; + rdfs:range nmdc_sub_schema:SurfMaterialEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface material" ; + skos:definition "Surface materials at the point of sampling" ; + skos:exactMatch MIXS:0000758 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000759 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_air_cont" ; + dcterms:title "surface-air contaminant" ; + rdfs:range nmdc_sub_schema:SurfAirContEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface-air contaminant" ; + skos:definition "Contaminant identified on surface" ; + skos:exactMatch MIXS:0000759 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000760 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "surf_moisture_ph" ; + dcterms:title "surface moisture pH" ; + rdfs:range nmdc_sub_schema:Double ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "surface moisture pH" ; + skos:definition "ph measurement of surface" ; + skos:exactMatch MIXS:0000760 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000761 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "build_occup_type" ; + dcterms:title "building occupancy type" ; + rdfs:range nmdc_sub_schema:BuildOccupTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "building occupancy type" ; + skos:definition "The primary function for which a building or discrete part of a building is intended to be used" ; + skos:exactMatch MIXS:0000761 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000763 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "indoor_space" ; + dcterms:title "indoor space" ; + rdfs:range nmdc_sub_schema:IndoorSpaceEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "indoor space" ; + skos:definition "A distinguishable space within a structure, the purpose for which discrete areas of a building is used" ; + skos:exactMatch MIXS:0000763 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000764 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "indoor_surf" ; + dcterms:title "indoor surface" ; + rdfs:range nmdc_sub_schema:IndoorSurfEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "indoor surface" ; + skos:definition "Type of indoor surface" ; + skos:exactMatch MIXS:0000764 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000765 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "filter_type" ; + dcterms:title "filter type" ; + rdfs:range nmdc_sub_schema:FilterTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "filter type" ; + skos:definition "A device which removes solid particulates or airborne molecular contaminants" ; + skos:exactMatch MIXS:0000765 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000766 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heat_cool_type" ; + dcterms:title "heating and cooling system type" ; + rdfs:range nmdc_sub_schema:HeatCoolTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "heating and cooling system type" ; + skos:definition "Methods of conditioning or heating a room or building" ; + skos:exactMatch MIXS:0000766 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000767 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "substructure_type" ; + dcterms:title "substructure type" ; + rdfs:range nmdc_sub_schema:SubstructureTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "substructure type" ; + skos:definition "The substructure or under building is that largely hidden section of the building which is built off the foundations to the ground floor level" ; + skos:exactMatch MIXS:0000767 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000768 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "building_setting" ; + dcterms:title "building setting" ; + rdfs:range nmdc_sub_schema:BuildingSettingEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "building setting" ; + skos:definition "A location (geography) where a building is set" ; + skos:exactMatch MIXS:0000768 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000769 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "light_type" ; + dcterms:title "light type" ; + rdfs:range nmdc_sub_schema:LightTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "light type" ; + skos:definition "Application of light to achieve some practical or aesthetic effect. Lighting includes the use of both artificial light sources such as lamps and light fixtures, as well as natural illumination by capturing daylight. Can also include absence of light" ; + skos:exactMatch MIXS:0000769 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000770 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "space_typ_state" ; + dcterms:title "space typical state" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "space typical state" ; + skos:definition "Customary or normal state of the space" ; + skos:exactMatch MIXS:0000770 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000771 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "typ_occup_density" ; + dcterms:title "typical occupant density" ; + rdfs:range nmdc_sub_schema:Double ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "typical occupant density" ; + skos:definition "Customary or normal density of occupants" ; + skos:exactMatch MIXS:0000771 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000772 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "occup_samp" ; + dcterms:title "occupancy at sampling" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "occupancy at sampling" ; + skos:definition "Number of occupants present at time of sample within the given space" ; + skos:exactMatch MIXS:0000772 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000773 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "aero_struc" ; + dcterms:title "aerospace structure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "aerospace structure" ; + skos:definition "Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together" ; + skos:exactMatch MIXS:0000773 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000774 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "arch_struc" ; + dcterms:title "architectural structure" ; + rdfs:range nmdc_sub_schema:ArchStrucEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "architectural structure" ; + skos:definition "An architectural structure is a human-made, free-standing, immobile outdoor construction" ; + skos:exactMatch MIXS:0000774 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000775 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "avg_occup" ; + dcterms:title "average daily occupancy" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "average daily occupancy" ; + skos:definition "Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room." ; + skos:exactMatch MIXS:0000775 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000776 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bathroom_count" ; + dcterms:title "bathroom count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bathroom count" ; + skos:definition "The number of bathrooms in the building" ; + skos:exactMatch MIXS:0000776 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000777 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bedroom_count" ; + dcterms:title "bedroom count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bedroom count" ; + skos:definition "The number of bedrooms in the building" ; + skos:exactMatch MIXS:0000777 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000778 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "built_struc_set" ; + dcterms:title "built structure setting" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "built structure setting" ; + skos:definition "The characterization of the location of the built structure as high or low human density" ; + skos:exactMatch MIXS:0000778 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000779 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_cond" ; + dcterms:title "ceiling condition" ; + rdfs:range nmdc_sub_schema:CeilCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling condition" ; + skos:definition "The physical condition of the ceiling at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas" ; + skos:exactMatch MIXS:0000779 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000780 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_finish_mat" ; + dcterms:title "ceiling finish material" ; + rdfs:range nmdc_sub_schema:CeilFinishMatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling finish material" ; + skos:definition "The type of material used to finish a ceiling" ; + skos:exactMatch MIXS:0000780 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000781 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_water_mold" ; + dcterms:title "ceiling signs of water/mold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew on the ceiling" ; + skos:exactMatch MIXS:0000781 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000782 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_struc" ; + dcterms:title "ceiling structure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling structure" ; + skos:definition "The construction format of the ceiling" ; + skos:exactMatch MIXS:0000782 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000783 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_texture" ; + dcterms:title "ceiling texture" ; + rdfs:range nmdc_sub_schema:CeilTextureEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling texture" ; + skos:definition "The feel, appearance, or consistency of a ceiling surface" ; + skos:exactMatch MIXS:0000783 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000784 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ceil_type" ; + dcterms:title "ceiling type" ; + rdfs:range nmdc_sub_schema:CeilTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ceiling type" ; + skos:definition "The type of ceiling according to the ceiling's appearance or construction" ; + skos:exactMatch MIXS:0000784 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000785 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "cool_syst_id" ; + dcterms:title "cooling system identifier" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "cooling system identifier" ; + skos:definition "The cooling system identifier" ; + skos:exactMatch MIXS:0000785 ; + nmdc_sub_schema:expected_value "unique identifier" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000786 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "date_last_rain" ; + dcterms:title "date last rain" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "date last rain" ; + skos:definition "The date of the last time it rained" ; + skos:exactMatch MIXS:0000786 ; + nmdc_sub_schema:expected_value "timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000787 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "build_docs" ; + dcterms:title "design, construction, and operation documents" ; + rdfs:range nmdc_sub_schema:BuildDocsEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "design, construction, and operation documents" ; + skos:definition "The building design, construction and operation documents" ; + skos:exactMatch MIXS:0000787 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000788 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_cond" ; + dcterms:title "door condition" ; + rdfs:range nmdc_sub_schema:DoorCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door condition" ; + skos:definition "The phsical condition of the door" ; + skos:exactMatch MIXS:0000788 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000789 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_direct" ; + dcterms:title "door direction of opening" ; + rdfs:range nmdc_sub_schema:DoorDirectEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door direction of opening" ; + skos:definition "The direction the door opens" ; + skos:exactMatch MIXS:0000789 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000790 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_loc" ; + dcterms:title "door location" ; + rdfs:range nmdc_sub_schema:DoorLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door location" ; + skos:definition "The relative location of the door in the room" ; + skos:exactMatch MIXS:0000790 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000791 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_mat" ; + dcterms:title "door material" ; + rdfs:range nmdc_sub_schema:DoorMatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door material" ; + skos:definition "The material the door is composed of" ; + skos:exactMatch MIXS:0000791 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000792 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_move" ; + dcterms:title "door movement" ; + rdfs:range nmdc_sub_schema:DoorMoveEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door movement" ; + skos:definition "The type of movement of the door" ; + skos:exactMatch MIXS:0000792 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000793 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_water_mold" ; + dcterms:title "door signs of water/mold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew on a door" ; + skos:exactMatch MIXS:0000793 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000794 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_type" ; + dcterms:title "door type" ; + rdfs:range nmdc_sub_schema:DoorTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door type" ; + skos:definition "The type of door material" ; + skos:exactMatch MIXS:0000794 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000795 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_comp_type" ; + dcterms:title "door type, composite" ; + rdfs:range nmdc_sub_schema:DoorCompTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door type, composite" ; + skos:definition "The composite type of the door" ; + skos:exactMatch MIXS:0000795 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000796 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_type_metal" ; + dcterms:title "door type, metal" ; + rdfs:range nmdc_sub_schema:DoorTypeMetalEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door type, metal" ; + skos:definition "The type of metal door" ; + skos:exactMatch MIXS:0000796 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000797 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "door_type_wood" ; + dcterms:title "door type, wood" ; + rdfs:range nmdc_sub_schema:DoorTypeWoodEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "door type, wood" ; + skos:definition "The type of wood door" ; + skos:exactMatch MIXS:0000797 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000798 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "drawings" ; + dcterms:title "drawings" ; + rdfs:range nmdc_sub_schema:DrawingsEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "drawings" ; + skos:definition "The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents" ; + skos:exactMatch MIXS:0000798 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000799 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "elevator" ; + dcterms:title "elevator count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "elevator count" ; + skos:definition "The number of elevators within the built structure" ; + skos:exactMatch MIXS:0000799 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000800 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "escalator" ; + dcterms:title "escalator count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "escalator count" ; + skos:definition "The number of escalators within the built structure" ; + skos:exactMatch MIXS:0000800 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000802 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fireplace_type" ; + dcterms:title "fireplace type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "fireplace type" ; + skos:definition "A firebox with chimney" ; + skos:exactMatch MIXS:0000802 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000803 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_cond" ; + dcterms:title "floor condition" ; + rdfs:range nmdc_sub_schema:FloorCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor condition" ; + skos:definition "The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas" ; + skos:exactMatch MIXS:0000803 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000804 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_finish_mat" ; + dcterms:title "floor finish material" ; + rdfs:range nmdc_sub_schema:FloorFinishMatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor finish material" ; + skos:definition "The floor covering type; the finished surface that is walked on" ; + skos:exactMatch MIXS:0000804 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000805 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_water_mold" ; + dcterms:title "floor signs of water/mold" ; + rdfs:range nmdc_sub_schema:FloorWaterMoldEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew in a room" ; + skos:exactMatch MIXS:0000805 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000806 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "floor_struc" ; + dcterms:title "floor structure" ; + rdfs:range nmdc_sub_schema:FloorStrucEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "floor structure" ; + skos:definition "Refers to the structural elements and subfloor upon which the finish flooring is installed" ; + skos:exactMatch MIXS:0000806 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000807 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "furniture" ; + dcterms:title "furniture" ; + rdfs:range nmdc_sub_schema:FurnitureEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "furniture" ; + skos:definition "The types of furniture present in the sampled room" ; + skos:exactMatch MIXS:0000807 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000808 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gender_restroom" ; + dcterms:title "gender of restroom" ; + rdfs:range nmdc_sub_schema:GenderRestroomEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "gender of restroom" ; + skos:definition "The gender type of the restroom" ; + skos:exactMatch MIXS:0000808 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000809 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "handidness" ; + dcterms:title "handidness" ; + rdfs:range nmdc_sub_schema:HandidnessEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "handidness" ; + skos:definition "The handidness of the individual sampled" ; + skos:exactMatch MIXS:0000809 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000810 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heat_deliv_loc" ; + dcterms:title "heating delivery locations" ; + rdfs:range nmdc_sub_schema:HeatDelivLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "heating delivery locations" ; + skos:definition "The location of heat delivery within the room" ; + skos:exactMatch MIXS:0000810 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000811 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_sex" ; + dcterms:title "host sex" ; + rdfs:range nmdc_sub_schema:HostSexEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host sex" ; + skos:definition "Gender or physical sex of the host." ; + skos:exactMatch MIXS:0000811 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000812 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heat_sys_deliv_meth" ; + dcterms:title "heating system delivery method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "heating system delivery method" ; + skos:definition "The method by which the heat is delivered through the system" ; + skos:exactMatch MIXS:0000812 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000813 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "int_wall_cond" ; + dcterms:title "interior wall condition" ; + rdfs:range nmdc_sub_schema:IntWallCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "interior wall condition" ; + skos:definition "The physical condition of the wall at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas" ; + skos:exactMatch MIXS:0000813 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000814 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "last_clean" ; + dcterms:title "last time swept/mopped/vacuumed" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "last time swept/mopped/vacuumed" ; + skos:definition "The last time the floor was cleaned (swept, mopped, vacuumed)" ; + skos:exactMatch MIXS:0000814 ; + nmdc_sub_schema:expected_value "timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000815 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mech_struc" ; + dcterms:title "mechanical structure" ; + rdfs:range nmdc_sub_schema:MechStrucEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mechanical structure" ; + skos:definition "mechanical structure: a moving structure" ; + skos:exactMatch MIXS:0000815 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000816 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "occup_document" ; + dcterms:title "occupancy documentation" ; + rdfs:range nmdc_sub_schema:OccupDocumentEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "occupancy documentation" ; + skos:definition "The type of documentation of occupancy" ; + skos:exactMatch MIXS:0000816 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000817 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ext_wall_orient" ; + dcterms:title "orientations of exterior wall" ; + rdfs:range nmdc_sub_schema:ExtWallOrientEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "orientations of exterior wall" ; + skos:definition "The orientation of the exterior wall" ; + skos:exactMatch MIXS:0000817 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000818 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ext_window_orient" ; + dcterms:title "orientations of exterior window" ; + rdfs:range nmdc_sub_schema:ExtWindowOrientEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "orientations of exterior window" ; + skos:definition "The compass direction the exterior window of the room is facing" ; + skos:exactMatch MIXS:0000818 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000819 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pres_animal_insect" ; + dcterms:title "presence of pets, animals, or insects" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "presence of pets, animals, or insects" ; + skos:definition "The type and number of animals or insects present in the sampling space." ; + skos:exactMatch MIXS:0000819 ; + nmdc_sub_schema:expected_value "enumeration;count" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000820 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "quad_pos" ; + dcterms:title "quadrant position" ; + rdfs:range nmdc_sub_schema:QuadPosEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "quadrant position" ; + skos:definition "The quadrant position of the sampling room within the building" ; + skos:exactMatch MIXS:0000820 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000821 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "rel_samp_loc" ; + dcterms:title "relative sampling location" ; + rdfs:range nmdc_sub_schema:RelSampLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "relative sampling location" ; + skos:definition "The sampling location within the train car" ; + skos:exactMatch MIXS:0000821 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000822 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_condt" ; + dcterms:title "room condition" ; + rdfs:range nmdc_sub_schema:RoomCondtEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room condition" ; + skos:definition "The condition of the room at the time of sampling" ; + skos:exactMatch MIXS:0000822 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000823 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_loc" ; + dcterms:title "room location in building" ; + rdfs:range nmdc_sub_schema:RoomLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room location in building" ; + skos:definition "The position of the room within the building" ; + skos:exactMatch MIXS:0000823 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000824 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_samp_pos" ; + dcterms:title "room sampling position" ; + rdfs:range nmdc_sub_schema:RoomSampPosEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room sampling position" ; + skos:definition "The horizontal sampling position in the room relative to architectural elements" ; + skos:exactMatch MIXS:0000824 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000825 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_type" ; + dcterms:title "room type" ; + rdfs:range nmdc_sub_schema:RoomTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "room type" ; + skos:definition "The main purpose or activity of the sampling room. A room is any distinguishable space within a structure" ; + skos:exactMatch MIXS:0000825 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000826 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "room_connected" ; + dcterms:title "rooms connected by a doorway" ; + rdfs:range nmdc_sub_schema:RoomConnectedEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooms connected by a doorway" ; + skos:definition "List of rooms connected to the sampling room by a doorway" ; + skos:exactMatch MIXS:0000826 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000827 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_weather" ; + dcterms:title "sampling day weather" ; + rdfs:range nmdc_sub_schema:SampWeatherEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sampling day weather" ; + skos:definition "The weather on the sampling day" ; + skos:exactMatch MIXS:0000827 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000828 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_floor" ; + dcterms:title "sampling floor" ; + rdfs:range nmdc_sub_schema:SampFloorEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sampling floor" ; + skos:definition "The floor of the building, where the sampling room is located" ; + skos:exactMatch MIXS:0000828 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000829 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "season" ; + dcterms:title "season" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "season" ; + skos:definition "The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729)." ; + skos:exactMatch MIXS:0000829 ; + nmdc_sub_schema:expected_value "NCIT:C94729" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000830 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "season_use" ; + dcterms:title "seasonal use" ; + rdfs:range nmdc_sub_schema:SeasonUseEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "seasonal use" ; + skos:definition "The seasons the space is occupied" ; + skos:exactMatch MIXS:0000830 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000831 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "shading_device_cond" ; + dcterms:title "shading device condition" ; + rdfs:range nmdc_sub_schema:ShadingDeviceCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "shading device condition" ; + skos:definition "The physical condition of the shading device at the time of sampling" ; + skos:exactMatch MIXS:0000831 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000832 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "shading_device_loc" ; + dcterms:title "shading device location" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "shading device location" ; + skos:definition "The location of the shading device in relation to the built structure" ; + skos:exactMatch MIXS:0000832 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000833 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "heat_system_id" ; + dcterms:title "heating system identifier" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "heating system identifier" ; + skos:definition "The heating system identifier" ; + skos:exactMatch MIXS:0000833 ; + nmdc_sub_schema:expected_value "unique identifier" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000834 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "shad_dev_water_mold" ; + dcterms:title "shading device signs of water/mold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "shading device signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew on the shading device" ; + skos:exactMatch MIXS:0000834 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000835 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "shading_device_type" ; + dcterms:title "shading device type" ; + rdfs:range nmdc_sub_schema:ShadingDeviceTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "shading device type" ; + skos:definition "The type of shading device" ; + skos:exactMatch MIXS:0000835 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000836 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "specific" ; + dcterms:title "specifications" ; + rdfs:range nmdc_sub_schema:SpecificEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "specifications" ; + skos:definition "The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents" ; + skos:exactMatch MIXS:0000836 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000837 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "train_line" ; + dcterms:title "train line" ; + rdfs:range nmdc_sub_schema:TrainLineEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "train line" ; + skos:definition "The subway line name" ; + skos:exactMatch MIXS:0000837 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000838 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "train_stat_loc" ; + dcterms:title "train station collection location" ; + rdfs:range nmdc_sub_schema:TrainStatLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "train station collection location" ; + skos:definition "The train station collection location" ; + skos:exactMatch MIXS:0000838 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000839 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "train_stop_loc" ; + dcterms:title "train stop collection location" ; + rdfs:range nmdc_sub_schema:TrainStopLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "train stop collection location" ; + skos:definition "The train stop collection location" ; + skos:exactMatch MIXS:0000839 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000840 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "vis_media" ; + dcterms:title "visual media" ; + rdfs:range nmdc_sub_schema:VisMediaEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "visual media" ; + skos:definition "The building visual media" ; + skos:exactMatch MIXS:0000840 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000841 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_const_type" ; + dcterms:title "wall construction type" ; + rdfs:range nmdc_sub_schema:WallConstTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall construction type" ; + skos:definition "The building class of the wall defined by the composition of the building elements and fire-resistance rating." ; + skos:exactMatch MIXS:0000841 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000842 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_finish_mat" ; + dcterms:title "wall finish material" ; + rdfs:range nmdc_sub_schema:WallFinishMatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall finish material" ; + skos:definition "The material utilized to finish the outer most layer of the wall" ; + skos:exactMatch MIXS:0000842 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000843 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_loc" ; + dcterms:title "wall location" ; + rdfs:range nmdc_sub_schema:WallLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall location" ; + skos:definition "The relative location of the wall within the room" ; + skos:exactMatch MIXS:0000843 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000844 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_water_mold" ; + dcterms:title "wall signs of water/mold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew on a wall" ; + skos:exactMatch MIXS:0000844 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000845 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_surf_treatment" ; + dcterms:title "wall surface treatment" ; + rdfs:range nmdc_sub_schema:WallSurfTreatmentEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall surface treatment" ; + skos:definition "The surface treatment of interior wall" ; + skos:exactMatch MIXS:0000845 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000846 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "wall_texture" ; + dcterms:title "wall texture" ; + rdfs:range nmdc_sub_schema:WallTextureEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "wall texture" ; + skos:definition "The feel, appearance, or consistency of a wall surface" ; + skos:exactMatch MIXS:0000846 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000847 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_feat_type" ; + dcterms:title "water feature type" ; + rdfs:range nmdc_sub_schema:WaterFeatTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water feature type" ; + skos:definition "The type of water feature present within the building being sampled" ; + skos:exactMatch MIXS:0000847 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000848 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "weekday" ; + dcterms:title "weekday" ; + rdfs:range nmdc_sub_schema:WeekdayEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "weekday" ; + skos:definition "The day of the week when sampling occurred" ; + skos:exactMatch MIXS:0000848 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000849 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_cond" ; + dcterms:title "window condition" ; + rdfs:range nmdc_sub_schema:WindowCondEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window condition" ; + skos:definition "The physical condition of the window at the time of sampling" ; + skos:exactMatch MIXS:0000849 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000850 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_cover" ; + dcterms:title "window covering" ; + rdfs:range nmdc_sub_schema:WindowCoverEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window covering" ; + skos:definition "The type of window covering" ; + skos:exactMatch MIXS:0000850 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000851 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_horiz_pos" ; + dcterms:title "window horizontal position" ; + rdfs:range nmdc_sub_schema:WindowHorizPosEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window horizontal position" ; + skos:definition "The horizontal position of the window on the wall" ; + skos:exactMatch MIXS:0000851 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000852 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_loc" ; + dcterms:title "window location" ; + rdfs:range nmdc_sub_schema:WindowLocEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window location" ; + skos:definition "The relative location of the window within the room" ; + skos:exactMatch MIXS:0000852 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000853 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_mat" ; + dcterms:title "window material" ; + rdfs:range nmdc_sub_schema:WindowMatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window material" ; + skos:definition "The type of material used to finish a window" ; + skos:exactMatch MIXS:0000853 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000854 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_water_mold" ; + dcterms:title "window signs of water/mold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window signs of water/mold" ; + skos:definition "Signs of the presence of mold or mildew on the window." ; + skos:exactMatch MIXS:0000854 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000855 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_status" ; + dcterms:title "window status" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window status" ; + skos:definition "Defines whether the windows were open or closed during environmental testing" ; + skos:exactMatch MIXS:0000855 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000856 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_type" ; + dcterms:title "window type" ; + rdfs:range nmdc_sub_schema:WindowTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window type" ; + skos:definition "The type of windows" ; + skos:exactMatch MIXS:0000856 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000857 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "window_vert_pos" ; + dcterms:title "window vertical position" ; + rdfs:range nmdc_sub_schema:WindowVertPosEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "window vertical position" ; + skos:definition "The vertical position of the window on the wall" ; + skos:exactMatch MIXS:0000857 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000861 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_subject_id" ; + dcterms:title "host subject id" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host subject id" ; + skos:definition "A unique identifier by which each subject can be referred to, de-identified." ; + skos:exactMatch MIXS:0000861 ; + nmdc_sub_schema:expected_value "unique identifier" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000866 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_body_habitat" ; + dcterms:title "host body habitat" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host body habitat" ; + skos:definition "Original body habitat where the sample was obtained from" ; + skos:exactMatch MIXS:0000866 ; + nmdc_sub_schema:expected_value "free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000867 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_body_site" ; + dcterms:title "host body site" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host body site" ; + skos:definition "Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON" ; + skos:exactMatch MIXS:0000867 ; + nmdc_sub_schema:expected_value "FMA or UBERON" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000869 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_diet" ; + dcterms:title "host diet" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host diet" ; + skos:definition "Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types" ; + skos:exactMatch MIXS:0000869 ; + nmdc_sub_schema:expected_value "diet type" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000870 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_last_meal" ; + dcterms:title "host last meal" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host last meal" ; + skos:definition "Content of last meal and time since feeding; can include multiple values" ; + skos:exactMatch MIXS:0000870 ; + nmdc_sub_schema:expected_value "content;duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000871 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_growth_cond" ; + dcterms:title "host growth conditions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host growth conditions" ; + skos:definition "Literature reference giving growth conditions of the host" ; + skos:exactMatch MIXS:0000871 ; + nmdc_sub_schema:expected_value "PMID,DOI,url or free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000872 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_family_relation" ; + dcterms:title "host family relationship" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host family relationship" ; + skos:definition "Familial relationships to other hosts in the same study; can include multiple relationships" ; + skos:exactMatch MIXS:0000872 ; + nmdc_sub_schema:expected_value "relationship type;arbitrary identifier" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000875 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gravidity" ; + dcterms:title "gravidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "gravidity" ; + skos:definition "Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used" ; + skos:exactMatch MIXS:0000875 ; + nmdc_sub_schema:expected_value "gravidity status;timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000888 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_body_product" ; + dcterms:title "host body product" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host body product" ; + skos:definition "Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon" ; + skos:exactMatch MIXS:0000888 ; + nmdc_sub_schema:expected_value "FMA or UBERON" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000994 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sr_kerog_type" ; + dcterms:title "source rock kerogen type" ; + rdfs:range nmdc_sub_schema:SrKerogTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "source rock kerogen type" ; + skos:definition "Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000994 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000995 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sr_lithology" ; + dcterms:title "source rock lithology" ; + rdfs:range nmdc_sub_schema:SrLithologyEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "source rock lithology" ; + skos:definition "Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000995 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000996 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sr_dep_env" ; + dcterms:title "source rock depositional environment" ; + rdfs:range nmdc_sub_schema:SrDepEnvEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "source rock depositional environment" ; + skos:definition "Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000996 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000997 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sr_geol_age" ; + dcterms:title "source rock geological age" ; + rdfs:range nmdc_sub_schema:SrGeolAgeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "source rock geological age" ; + skos:definition "Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000997 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001008 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "prod_start_date" ; + dcterms:title "production start date" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "production start date" ; + skos:definition "Date of field's first production" ; + skos:exactMatch MIXS:0001008 ; + nmdc_sub_schema:expected_value "timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001009 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "add_recov_method" ; + dcterms:title "secondary and tertiary recovery methods and start date" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "secondary and tertiary recovery methods and start date" ; + skos:definition "Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0001009 ; + nmdc_sub_schema:expected_value "enumeration;timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001010 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "iw_bt_date_well" ; + dcterms:title "injection water breakthrough date of specific well" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "injection water breakthrough date of specific well" ; + skos:definition "Injection water breakthrough date per well following a secondary and/or tertiary recovery" ; + skos:exactMatch MIXS:0001010 ; + nmdc_sub_schema:expected_value "timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001011 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biocide" ; + dcterms:title "biocide administration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biocide administration" ; + skos:definition "List of biocides (commercial name of product and supplier) and date of administration" ; + skos:exactMatch MIXS:0001011 ; + nmdc_sub_schema:expected_value "name;name;timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001012 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chem_treatment" ; + dcterms:title "chemical treatment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chemical treatment" ; + skos:definition "List of chemical compounds administered upstream the sampling location where sampling occurred (e.g. Glycols, H2S scavenger, corrosion and scale inhibitors, demulsifiers, and other production chemicals etc.). The commercial name of the product and name of the supplier should be provided. The date of administration should also be included" ; + skos:exactMatch MIXS:0001012 ; + nmdc_sub_schema:expected_value "name;name;timestamp" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001015 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_collect_point" ; + dcterms:title "sample collection point" ; + rdfs:range nmdc_sub_schema:SampCollectPointEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample collection point" ; + skos:definition "Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0001015 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001041 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "cult_root_med" ; + dcterms:title "culture rooting medium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "culture rooting medium" ; + skos:definition "Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors." ; + skos:exactMatch MIXS:0001041 ; + nmdc_sub_schema:expected_value "name, PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001044 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "growth_habit" ; + dcterms:title "growth habit" ; + rdfs:range nmdc_sub_schema:GrowthHabitEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "growth habit" ; + skos:definition "Characteristic shape, appearance or growth form of a plant species" ; + skos:exactMatch MIXS:0001044 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001052 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mechanical_damage" ; + dcterms:title "mechanical damage" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mechanical damage" ; + skos:definition "Information about any mechanical damage exerted on the plant; can include multiple damages and sites" ; + skos:exactMatch MIXS:0001052 ; + nmdc_sub_schema:expected_value "damage type;body site" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001056 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ph_regm" ; + dcterms:title "pH regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pH regimen" ; + skos:definition "Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen" ; + skos:exactMatch MIXS:0001056 ; + nmdc_sub_schema:expected_value "measurement value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001057 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "plant_growth_med" ; + dcterms:title "plant growth medium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "plant growth medium" ; + skos:definition "Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary" ; + skos:exactMatch MIXS:0001057 ; + nmdc_sub_schema:expected_value "EO or enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001058 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "plant_product" ; + dcterms:title "plant product" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "plant product" ; + skos:definition "Substance produced by the plant, where the sample was obtained from" ; + skos:exactMatch MIXS:0001058 ; + nmdc_sub_schema:expected_value "product name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001059 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "plant_sex" ; + dcterms:title "plant sex" ; + rdfs:range nmdc_sub_schema:PlantSexEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "plant sex" ; + skos:definition "Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite." ; + skos:exactMatch MIXS:0001059 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001060 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "plant_struc" ; + dcterms:title "plant structure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "plant structure" ; + skos:definition "Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here." ; + skos:exactMatch MIXS:0001060 ; + nmdc_sub_schema:expected_value "PO" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001061 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_cond" ; + dcterms:title "rooting conditions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting conditions" ; + skos:definition "Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container." ; + skos:exactMatch MIXS:0001061 ; + nmdc_sub_schema:expected_value "PMID,DOI,url or free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001062 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_ph" ; + dcterms:title "rooting medium pH" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium pH" ; + skos:definition "pH measurement of the culture rooting medium; e.g. 5.5." ; + skos:exactMatch MIXS:0001062 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001063 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "root_med_solid" ; + dcterms:title "rooting medium solidifier" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "rooting medium solidifier" ; + skos:definition "Specification of the solidifying agent in the culture rooting medium; e.g. agar." ; + skos:exactMatch MIXS:0001063 ; + nmdc_sub_schema:expected_value "name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001068 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "season_environment" ; + dcterms:title "seasonal environment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "seasonal environment" ; + skos:definition "Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment" ; + skos:exactMatch MIXS:0001068 ; + nmdc_sub_schema:expected_value "seasonal environment name;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001069 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "standing_water_regm" ; + dcterms:title "standing water regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "standing water regimen" ; + skos:definition "Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0001069 ; + nmdc_sub_schema:expected_value "standing water type;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001070 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tiss_cult_growth_med" ; + dcterms:title "tissue culture growth media" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "tissue culture growth media" ; + skos:definition "Description of plant tissue culture growth media used" ; + skos:exactMatch MIXS:0001070 ; + nmdc_sub_schema:expected_value "PMID,DOI,url or free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001078 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sediment_type" ; + dcterms:title "sediment type" ; + rdfs:range nmdc_sub_schema:SedimentTypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sediment type" ; + skos:definition "Information about the sediment type based on major constituents" ; + skos:exactMatch MIXS:0001078 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001080 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "cur_land_use" ; + dcterms:title "current land use" ; + rdfs:range nmdc_sub_schema:CurLandUseEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "current land use" ; + skos:definition "Present state of sample site" ; + skos:exactMatch MIXS:0001080 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001081 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tillage" ; + dcterms:title "history/tillage" ; + rdfs:range nmdc_sub_schema:TillageEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/tillage" ; + skos:definition "Note method(s) used for tilling" ; + skos:exactMatch MIXS:0001081 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001082 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "soil_horizon" ; + dcterms:title "soil horizon" ; + rdfs:range nmdc_sub_schema:SoilHorizonEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil horizon" ; + skos:definition "Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath" ; + skos:exactMatch MIXS:0001082 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001083 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fao_class" ; + dcterms:title "soil_taxonomic/FAO classification" ; + rdfs:range nmdc_sub_schema:FaoClassEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil_taxonomic/FAO classification" ; + skos:definition "Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups" ; + skos:exactMatch MIXS:0001083 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001084 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "profile_position" ; + dcterms:title "profile position" ; + rdfs:range nmdc_sub_schema:ProfilePositionEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "profile position" ; + skos:definition "Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas" ; + skos:exactMatch MIXS:0001084 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001085 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "drainage_class" ; + dcterms:title "drainage classification" ; + rdfs:range nmdc_sub_schema:DrainageClassEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "drainage classification" ; + skos:definition "Drainage classification from a standard system such as the USDA system" ; + skos:exactMatch MIXS:0001085 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001086 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "fire" ; + dcterms:title "history/fire" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "history/fire" ; + skos:definition "Historical and/or physical evidence of fire" ; + skos:exactMatch MIXS:0001086 ; + nmdc_sub_schema:expected_value "date" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001097 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "atmospheric_data" ; + dcterms:title "atmospheric data" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "atmospheric data" ; + skos:definition "Measurement of atmospheric data; can include multiple data" ; + skos:exactMatch MIXS:0001097 ; + nmdc_sub_schema:expected_value "atmospheric data name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + + a owl:Class, + nmdc_sub_schema:AnalysisTypeEnum ; + rdfs:label "metabolomics" . + + a owl:Class, + nmdc_sub_schema:AnalysisTypeEnum ; + rdfs:label "metagenomics" . + + a owl:Class, + nmdc_sub_schema:AnalysisTypeEnum ; + rdfs:label "metaproteomics" . + + a owl:Class, + nmdc_sub_schema:AnalysisTypeEnum ; + rdfs:label "metatranscriptomics" . + + a owl:Class, + nmdc_sub_schema:AnalysisTypeEnum ; + rdfs:label "natural organic matter" . + + a owl:Class, + nmdc_sub_schema:BioticRelationshipEnum ; + rdfs:label "free living" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "10 mM Tris-HCl" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "DNAStable" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Ethanol" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Low EDTA TE" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "MDA reaction buffer" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "PBS" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Pellet" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "RNAStable" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "TE" . + + a owl:Class, + nmdc_sub_schema:DnaSampleFormatEnum ; + rdfs:label "Water" . + + a owl:Class, + nmdc_sub_schema:OxyStatSampEnum ; + rdfs:label "aerobic" . + + a owl:Class, + nmdc_sub_schema:OxyStatSampEnum ; + rdfs:label "anaerobic" . + + a owl:Class, + nmdc_sub_schema:OxyStatSampEnum ; + rdfs:label "other" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "10 mM Tris-HCl" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "DNAStable" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Ethanol" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Low EDTA TE" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "MDA reaction buffer" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "PBS" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Pellet" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "RNAStable" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "TE" . + + a owl:Class, + nmdc_sub_schema:RnaSampleFormatEnum ; + rdfs:label "Water" . + + a owl:Class, + nmdc_sub_schema:SampleTypeEnum ; + rdfs:label "soil" . + + a owl:Class, + nmdc_sub_schema:SampleTypeEnum ; + rdfs:label "water_extract_soil" . + +MIXS:0000097 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "carb_dioxide" ; + dcterms:title "carbon dioxide" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "carbon dioxide" ; + skos:definition "Carbon dioxide (gas) amount or concentration at the time of sampling" ; + skos:exactMatch MIXS:0000097 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000099 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_count_qpcr_info" ; + dcterms:title "organism count qPCR information" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organism count qPCR information" ; + skos:definition "If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)" ; + skos:exactMatch MIXS:0000099 ; + nmdc_sub_schema:expected_value "gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "number of cells per gram (or ml or cm^2)" ; + linkml:is_a "core field" . + +MIXS:0000105 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_iron" ; + dcterms:title "total iron" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total iron" ; + skos:definition "Concentration of total iron in the sample" ; + skos:exactMatch MIXS:0000105 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, milligram per kilogram" ; + linkml:is_a "core field" . + +MIXS:0000120 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tan" ; + dcterms:title "total acid number" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total acid number" ; + skos:definition "Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)" ; + skos:exactMatch MIXS:0000120 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000126 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "viscosity" ; + dcterms:title "viscosity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "viscosity" ; + skos:definition "A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C)" ; + skos:exactMatch MIXS:0000126 ; + nmdc_sub_schema:expected_value "measurement value;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cP at degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000127 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pour_point" ; + dcterms:title "pour point" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pour point" ; + skos:definition "Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)" ; + skos:exactMatch MIXS:0000127 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000131 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "saturates_pc" ; + dcterms:title "saturates wt%" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "saturates wt%" ; + skos:definition "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)" ; + skos:exactMatch MIXS:0000131 ; + nmdc_sub_schema:expected_value "name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000133 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "aromatics_pc" ; + dcterms:title "aromatics wt%" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "aromatics wt%" ; + skos:definition "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)" ; + skos:exactMatch MIXS:0000133 ; + nmdc_sub_schema:expected_value "name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000134 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "resins_pc" ; + dcterms:title "resins wt%" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "resins wt%" ; + skos:definition "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)" ; + skos:exactMatch MIXS:0000134 ; + nmdc_sub_schema:expected_value "name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000135 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "asphaltenes_pc" ; + dcterms:title "asphaltenes wt%" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "asphaltenes wt%" ; + skos:definition "Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)" ; + skos:exactMatch MIXS:0000135 ; + nmdc_sub_schema:expected_value "name;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percent" ; + linkml:is_a "core field" . + +MIXS:0000139 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_iron" ; + dcterms:title "dissolved iron" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved iron" ; + skos:definition "Concentration of dissolved iron in the sample" ; + skos:exactMatch MIXS:0000139 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000152 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "vfa" ; + dcterms:title "volatile fatty acids" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "volatile fatty acids" ; + skos:definition "Concentration of Volatile Fatty Acids in the sample" ; + skos:exactMatch MIXS:0000152 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000153 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "benzene" ; + dcterms:title "benzene" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "benzene" ; + skos:definition "Concentration of benzene in the sample" ; + skos:exactMatch MIXS:0000153 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000154 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "toluene" ; + dcterms:title "toluene" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "toluene" ; + skos:definition "Concentration of toluene in the sample" ; + skos:exactMatch MIXS:0000154 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000155 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ethylbenzene" ; + dcterms:title "ethylbenzene" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ethylbenzene" ; + skos:definition "Concentration of ethylbenzene in the sample" ; + skos:exactMatch MIXS:0000155 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000156 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "xylene" ; + dcterms:title "xylene" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "xylene" ; + skos:definition "Concentration of xylene in the sample" ; + skos:exactMatch MIXS:0000156 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000157 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "api" ; + dcterms:title "API gravity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "API gravity" ; + skos:definition "API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)" ; + skos:exactMatch MIXS:0000157 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degrees API" ; + linkml:is_a "core field" . + +MIXS:0000203 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_current" ; + dcterms:title "water current" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water current" ; + skos:definition "Measurement of magnitude and direction of flow within a fluid" ; + skos:exactMatch MIXS:0000203 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "cubic meter per second, knots" ; + linkml:is_a "core field" . + +MIXS:0000211 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "porosity" ; + dcterms:title "porosity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "porosity" ; + skos:definition "Porosity of deposited sediment is volume of voids divided by the total volume of sample" ; + skos:exactMatch MIXS:0000211 ; + nmdc_sub_schema:expected_value "measurement value or range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "percentage" ; + linkml:is_a "core field" . + +MIXS:0000247 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ances_data" ; + dcterms:title "ancestral data" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ancestral data" ; + skos:definition "Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B)" ; + skos:exactMatch MIXS:0000247 ; + nmdc_sub_schema:expected_value "free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000248 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_common_name" ; + dcterms:title "host common name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host common name" ; + skos:definition "Common name of the host." ; + skos:exactMatch MIXS:0000248 ; + nmdc_sub_schema:expected_value "common name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000249 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_dis_stage" ; + dcterms:title "sample disease stage" ; + rdfs:range nmdc_sub_schema:SampDisStageEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample disease stage" ; + skos:definition "Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen." ; + skos:exactMatch MIXS:0000249 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000250 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_taxid" ; + dcterms:title "host taxid" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host taxid" ; + skos:definition "NCBI taxon id of the host, e.g. 9606" ; + skos:exactMatch MIXS:0000250 ; + nmdc_sub_schema:expected_value "NCBI taxon identifier" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000251 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_life_stage" ; + dcterms:title "host life stage" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host life stage" ; + skos:definition "Description of life stage of host" ; + skos:exactMatch MIXS:0000251 ; + nmdc_sub_schema:expected_value "stage" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000255 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_age" ; + dcterms:title "host age" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host age" ; + skos:definition "Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees" ; + skos:exactMatch MIXS:0000255 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "year, day, hour" ; + linkml:is_a "core field" . + +MIXS:0000256 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_length" ; + dcterms:title "host length" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host length" ; + skos:definition "The length of subject" ; + skos:exactMatch MIXS:0000256 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "centimeter, millimeter, meter" ; + linkml:is_a "core field" . + +MIXS:0000257 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_dry_mass" ; + dcterms:title "host dry mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host dry mass" ; + skos:definition "Measurement of dry mass" ; + skos:exactMatch MIXS:0000257 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "kilogram, gram" ; + linkml:is_a "core field" . + +MIXS:0000263 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_tot_mass" ; + dcterms:title "host total mass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host total mass" ; + skos:definition "Total mass of the host at collection, the unit depends on host" ; + skos:exactMatch MIXS:0000263 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "kilogram, gram" ; + linkml:is_a "core field" . + +MIXS:0000264 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_height" ; + dcterms:title "host height" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host height" ; + skos:definition "The height of subject" ; + skos:exactMatch MIXS:0000264 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "centimeter, millimeter, meter" ; + linkml:is_a "core field" . + +MIXS:0000290 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "basin" ; + dcterms:title "basin name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "basin name" ; + skos:definition "Name of the basin (e.g. Campos)" ; + skos:exactMatch MIXS:0000290 ; + nmdc_sub_schema:expected_value "name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000291 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "field" ; + dcterms:title "field name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "field name" ; + skos:definition "Name of the hydrocarbon field (e.g. Albacora)" ; + skos:exactMatch MIXS:0000291 ; + nmdc_sub_schema:expected_value "name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000296 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_well_name" ; + dcterms:title "sample well name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample well name" ; + skos:definition "Name of the well (e.g. BXA1123) where sample was taken" ; + skos:exactMatch MIXS:0000296 ; + nmdc_sub_schema:expected_value "name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000297 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "win" ; + dcterms:title "well identification number" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "well identification number" ; + skos:definition "A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)" ; + skos:exactMatch MIXS:0000297 ; + nmdc_sub_schema:expected_value "text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000300 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "additional_info" ; + dcterms:title "additional info" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "additional info" ; + skos:definition "Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary" ; + skos:exactMatch MIXS:0000300 ; + nmdc_sub_schema:expected_value "text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000303 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "reservoir" ; + dcterms:title "reservoir name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "reservoir name" ; + skos:definition "Name of the reservoir (e.g. Carapebus)" ; + skos:exactMatch MIXS:0000303 ; + nmdc_sub_schema:expected_value "name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000365 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_genotype" ; + dcterms:title "host genotype" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host genotype" ; + skos:definition "Observed genotype" ; + skos:exactMatch MIXS:0000365 ; + nmdc_sub_schema:expected_value "genotype" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000393 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_temp" ; + dcterms:title "hydrocarbon resource original temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hydrocarbon resource original temperature" ; + skos:definition "Original temperature of the hydrocarbon resource" ; + skos:exactMatch MIXS:0000393 ; + nmdc_sub_schema:expected_value "measurement value range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000394 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tvdss_of_hcr_temp" ; + dcterms:title "depth (TVDSS) of hydrocarbon resource temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "depth (TVDSS) of hydrocarbon resource temperature" ; + skos:definition "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m)." ; + skos:exactMatch MIXS:0000394 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000395 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_pressure" ; + dcterms:title "hydrocarbon resource original pressure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hydrocarbon resource original pressure" ; + skos:definition "Original pressure of the hydrocarbon resource" ; + skos:exactMatch MIXS:0000395 ; + nmdc_sub_schema:expected_value "measurement value range" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "atmosphere, kilopascal" ; + linkml:is_a "core field" . + +MIXS:0000397 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tvdss_of_hcr_press" ; + dcterms:title "depth (TVDSS) of hydrocarbon resource pressure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "depth (TVDSS) of hydrocarbon resource pressure" ; + skos:definition "True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m)." ; + skos:exactMatch MIXS:0000397 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000406 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_fw_salinity" ; + dcterms:title "formation water salinity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "formation water salinity" ; + skos:definition "Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS" ; + skos:exactMatch MIXS:0000406 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000407 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sulfate_fw" ; + dcterms:title "sulfate in formation water" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sulfate in formation water" ; + skos:definition "Original sulfate concentration in the hydrocarbon resource" ; + skos:exactMatch MIXS:0000407 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000408 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "vfa_fw" ; + dcterms:title "vfa in formation water" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "vfa in formation water" ; + skos:definition "Original volatile fatty acid concentration in the hydrocarbon resource" ; + skos:exactMatch MIXS:0000408 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000410 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_transport_cond" ; + dcterms:title "sample transport conditions" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample transport conditions" ; + skos:definition "Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C)" ; + skos:exactMatch MIXS:0000410 ; + nmdc_sub_schema:expected_value "measurement value;measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "days;degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000419 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_sulfur" ; + dcterms:title "total sulfur" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total sulfur" ; + skos:definition "Concentration of total sulfur in the sample" ; + skos:exactMatch MIXS:0000419 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000438 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_oxygen_fluid" ; + dcterms:title "dissolved oxygen in fluids" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved oxygen in fluids" ; + skos:definition "Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic)." ; + skos:exactMatch MIXS:0000438 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per kilogram, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000551 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "air_temp_regm" ; + dcterms:title "air temperature regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "air temperature regimen" ; + skos:definition "Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens" ; + skos:exactMatch MIXS:0000551 ; + nmdc_sub_schema:expected_value "temperature value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000558 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gaseous_environment" ; + dcterms:title "gaseous environment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "gaseous environment" ; + skos:definition "Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens" ; + skos:exactMatch MIXS:0000558 ; + nmdc_sub_schema:expected_value "gaseous compound name;gaseous compound amount;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000568 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "humidity_regm" ; + dcterms:title "humidity regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "humidity regimen" ; + skos:definition "Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0000568 ; + nmdc_sub_schema:expected_value "humidity value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram per cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000569 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "light_regm" ; + dcterms:title "light regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "light regimen" ; + skos:definition "Information about treatment(s) involving exposure to light, including both light intensity and quality." ; + skos:exactMatch MIXS:0000569 ; + nmdc_sub_schema:expected_value "exposure type;light intensity;light quality" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "lux; micrometer, nanometer, angstrom" ; + linkml:is_a "core field" . + +MIXS:0000591 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "watering_regm" ; + dcterms:title "watering regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "watering regimen" ; + skos:definition "Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens" ; + skos:exactMatch MIXS:0000591 ; + nmdc_sub_schema:expected_value "measurement value;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "milliliter, liter" ; + linkml:is_a "core field" . + +MIXS:0000634 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_depth_water_col" ; + dcterms:title "total depth of water column" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total depth of water column" ; + skos:definition "Measurement of total depth of water column" ; + skos:exactMatch MIXS:0000634 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter" ; + linkml:is_a "core field" . + +MIXS:0000735 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "size_frac_low" ; + dcterms:title "size-fraction lower threshold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "size-fraction lower threshold" ; + skos:definition "Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample" ; + skos:exactMatch MIXS:0000735 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micrometer" ; + linkml:is_a "core field" . + +MIXS:0000736 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "size_frac_up" ; + dcterms:title "size-fraction upper threshold" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "size-fraction upper threshold" ; + skos:definition "Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample" ; + skos:exactMatch MIXS:0000736 ; + nmdc_sub_schema:expected_value "value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micrometer" ; + linkml:is_a "core field" . + +MIXS:0000750 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tidal_stage" ; + dcterms:title "tidal stage" ; + rdfs:range nmdc_sub_schema:TidalStageEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "tidal stage" ; + skos:definition "Stage of tide" ; + skos:exactMatch MIXS:0000750 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000756 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ventilation_type" ; + dcterms:title "ventilation type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ventilation type" ; + skos:definition "Ventilation system used in the sampled premises" ; + skos:exactMatch MIXS:0000756 ; + nmdc_sub_schema:expected_value "ventilation type name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000858 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biol_stat" ; + dcterms:title "biological status" ; + rdfs:range nmdc_sub_schema:BiolStatEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biological status" ; + skos:definition "The level of genome modification." ; + skos:exactMatch MIXS:0000858 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000859 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "genetic_mod" ; + dcterms:title "genetic modification" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "genetic modification" ; + skos:definition "Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection" ; + skos:exactMatch MIXS:0000859 ; + nmdc_sub_schema:expected_value "PMID,DOI,url or free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000860 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_capt_status" ; + dcterms:title "sample capture status" ; + rdfs:range nmdc_sub_schema:SampCaptStatusEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample capture status" ; + skos:definition "Reason for the sample" ; + skos:exactMatch MIXS:0000860 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000874 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_phenotype" ; + dcterms:title "host phenotype" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host phenotype" ; + skos:definition "Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP" ; + skos:exactMatch MIXS:0000874 ; + nmdc_sub_schema:expected_value "PATO or HP" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000988 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr" ; + dcterms:title "hydrocarbon resource type" ; + rdfs:range nmdc_sub_schema:HcrEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hydrocarbon resource type" ; + skos:definition "Main Hydrocarbon Resource type. The term \"Hydrocarbon Resource\" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000988 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000989 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hc_produced" ; + dcterms:title "hydrocarbon type produced" ; + rdfs:range nmdc_sub_schema:HcProducedEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hydrocarbon type produced" ; + skos:definition "Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000989 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000990 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "lithology" ; + dcterms:title "lithology" ; + rdfs:range nmdc_sub_schema:LithologyEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "lithology" ; + skos:definition "Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000990 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000992 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "depos_env" ; + dcterms:title "depositional environment" ; + rdfs:range nmdc_sub_schema:DeposEnvEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "depositional environment" ; + skos:definition "Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000992 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000993 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "hcr_geol_age" ; + dcterms:title "hydrocarbon resource geological age" ; + rdfs:range nmdc_sub_schema:HcrGeolAgeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "hydrocarbon resource geological age" ; + skos:definition "Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000993 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000998 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_type" ; + dcterms:title "sample type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample type" ; + skos:definition "The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246)." ; + skos:exactMatch MIXS:0000998 ; + nmdc_sub_schema:expected_value "GENEPIO:0001246" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000999 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_subtype" ; + dcterms:title "sample subtype" ; + rdfs:range nmdc_sub_schema:SampSubtypeEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample subtype" ; + skos:definition "Name of sample sub-type. For example if \"sample type\" is \"Produced Water\" then subtype could be \"Oil Phase\" or \"Water Phase\". If \"other\" is specified, please propose entry in \"additional info\" field" ; + skos:exactMatch MIXS:0000999 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001038 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biotic_regm" ; + dcterms:title "biotic regimen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biotic regimen" ; + skos:definition "Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi." ; + skos:exactMatch MIXS:0001038 ; + nmdc_sub_schema:expected_value "free text" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001040 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "climate_environment" ; + dcterms:title "climate environment" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "climate environment" ; + skos:definition "Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates" ; + skos:exactMatch MIXS:0001040 ; + nmdc_sub_schema:expected_value "climate name;treatment interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001043 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "growth_facil" ; + dcterms:title "growth facility" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "growth facility" ; + skos:definition "Type of facility where the sampled plant was grown; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field. Alternatively use Crop Ontology (CO) terms, see http://www.cropontology.org/ontology/CO_715/Crop%20Research" ; + skos:exactMatch MIXS:0001043 ; + nmdc_sub_schema:expected_value "free text or CO" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001298 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_symbiont" ; + dcterms:title "observed host symbionts" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "observed host symbionts" ; + skos:definition "The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host." ; + skos:exactMatch MIXS:0001298 ; + nmdc_sub_schema:expected_value "species name or common name" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001318 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "host_subspecf_genlin" ; + dcterms:title "host subspecific genetic lineage" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "host subspecific genetic lineage" ; + skos:definition "Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123." ; + skos:exactMatch MIXS:0001318 ; + nmdc_sub_schema:expected_value "Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar." ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +nmdc_sub_schema:SampleTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "SampleTypeEnum", + "sample_type_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + . + +nmdc_sub_schema:StoreCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "StoreCondEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +MIXS:0000101 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "methane" ; + dcterms:title "methane" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "methane" ; + skos:definition "Methane (gas) amount or concentration at the time of sampling" ; + skos:exactMatch MIXS:0000101 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, parts per billion, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000106 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_inorg_phosp" ; + dcterms:title "dissolved inorganic phosphorus" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved inorganic phosphorus" ; + skos:definition "Concentration of dissolved inorganic phosphorus in the sample" ; + skos:exactMatch MIXS:0000106 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000117 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_phosp" ; + dcterms:title "total phosphorus" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total phosphorus" ; + skos:definition "Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus" ; + skos:exactMatch MIXS:0000117 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000137 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "glucosidase_act" ; + dcterms:title "glucosidase activity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "glucosidase activity" ; + skos:definition "Measurement of glucosidase activity" ; + skos:exactMatch MIXS:0000137 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mol per liter per hour" ; + linkml:is_a "core field" . + +MIXS:0000150 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "suspend_solids" ; + dcterms:title "suspended solids" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "suspended solids" ; + skos:definition "Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances" ; + skos:exactMatch MIXS:0000150 ; + nmdc_sub_schema:expected_value "suspended solid name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "gram, microgram, milligram per liter, mole per liter, gram per liter, part per million" ; + linkml:is_a "core field" . + +MIXS:0000172 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "aminopept_act" ; + dcterms:title "aminopeptidase activity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "aminopeptidase activity" ; + skos:definition "Measurement of aminopeptidase activity" ; + skos:exactMatch MIXS:0000172 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mole per liter per hour" ; + linkml:is_a "core field" . + +MIXS:0000173 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bacteria_carb_prod" ; + dcterms:title "bacterial carbon production" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bacterial carbon production" ; + skos:definition "Measurement of bacterial carbon production" ; + skos:exactMatch MIXS:0000173 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "nanogram per hour" ; + linkml:is_a "core field" . + +MIXS:0000175 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bishomohopanol" ; + dcterms:title "bishomohopanol" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bishomohopanol" ; + skos:definition "Concentration of bishomohopanol" ; + skos:exactMatch MIXS:0000175 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, microgram per gram" ; + linkml:is_a "core field" . + +MIXS:0000180 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "phaeopigments" ; + dcterms:title "phaeopigments" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "phaeopigments" ; + skos:definition "Concentration of phaeopigments; can include multiple phaeopigments" ; + skos:exactMatch MIXS:0000180 ; + nmdc_sub_schema:expected_value "phaeopigment name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "milligram per cubic meter" ; + linkml:is_a "core field" . + +MIXS:0000182 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "redox_potential" ; + dcterms:title "redox potential" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "redox potential" ; + skos:definition "Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential" ; + skos:exactMatch MIXS:0000182 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "millivolt" ; + linkml:is_a "core field" . + +MIXS:0000185 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "water_content" ; + dcterms:title "water content" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "water content" ; + skos:definition "Water content measurement" ; + skos:exactMatch MIXS:0000185 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram per gram or cubic centimeter per cubic centimeter" ; + linkml:is_a "core field" . + +MIXS:0000191 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "turbidity" ; + dcterms:title "turbidity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "turbidity" ; + skos:definition "Measure of the amount of cloudiness or haziness in water caused by individual particles" ; + skos:exactMatch MIXS:0000191 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "formazin turbidity unit, formazin nephelometric units" ; + linkml:is_a "core field" . + +MIXS:0000298 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "alkalinity_method" ; + dcterms:title "alkalinity method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "alkalinity method" ; + skos:definition "Method used for alkalinity measurement" ; + skos:exactMatch MIXS:0000298 ; + nmdc_sub_schema:expected_value "description of method" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000490 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "alkyl_diethers" ; + dcterms:title "alkyl diethers" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "alkyl diethers" ; + skos:definition "Concentration of alkyl diethers" ; + skos:exactMatch MIXS:0000490 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mole per liter" ; + linkml:is_a "core field" . + +MIXS:0000498 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mean_frict_vel" ; + dcterms:title "mean friction velocity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean friction velocity" ; + skos:definition "Measurement of mean friction velocity" ; + skos:exactMatch MIXS:0000498 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter per second" ; + linkml:is_a "core field" . + +MIXS:0000502 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "mean_peak_frict_vel" ; + dcterms:title "mean peak friction velocity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "mean peak friction velocity" ; + skos:definition "Measurement of mean peak friction velocity" ; + skos:exactMatch MIXS:0000502 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "meter per second" ; + linkml:is_a "core field" . + +MIXS:0000503 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "n_alkanes" ; + dcterms:title "n-alkanes" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "n-alkanes" ; + skos:definition "Concentration of n-alkanes; can include multiple n-alkanes" ; + skos:exactMatch MIXS:0000503 ; + nmdc_sub_schema:expected_value "n-alkane name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000515 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "part_org_carb" ; + dcterms:title "particulate organic carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "particulate organic carbon" ; + skos:definition "Concentration of particulate organic carbon" ; + skos:exactMatch MIXS:0000515 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000516 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "petroleum_hydrocarb" ; + dcterms:title "petroleum hydrocarbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "petroleum hydrocarbon" ; + skos:definition "Concentration of petroleum hydrocarbon" ; + skos:exactMatch MIXS:0000516 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000525 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_carb" ; + dcterms:title "total carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total carbon" ; + skos:definition "Total carbon content" ; + skos:exactMatch MIXS:0000525 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000530 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_nitro_content" ; + dcterms:title "total nitrogen content" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total nitrogen content" ; + skos:definition "Total nitrogen content of the sample" ; + skos:exactMatch MIXS:0000530 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000533 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_org_carb" ; + dcterms:title "total organic carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total organic carbon" ; + skos:definition "Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content" ; + skos:exactMatch MIXS:0000533 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram Carbon per kilogram sample material" ; + linkml:is_a "core field" . + +nmdc_sub_schema:ArchStrucEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "arch_struc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:DoorDirectEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_direct_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:DoorTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:FurnitureEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "furniture_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:RelSampLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "rel_samp_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:RoomLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "room_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:SubstructureTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "substructure_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:TrainLineEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "train_line_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:TrainStopLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "train_stop_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:WindowCoverEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_cover_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:WindowHorizPosEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_horiz_pos_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:WindowTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:gold_path_field a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "gold_path_field" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:definition "This is a grouping for any of the gold path fields" ; + linkml:is_a "attribute" . + +MIXS:0000102 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "tot_nitro" ; + dcterms:title "total nitrogen concentration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "total nitrogen concentration" ; + skos:definition "Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen" ; + skos:exactMatch MIXS:0000102 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, micromole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000119 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_oxygen" ; + dcterms:title "dissolved oxygen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved oxygen" ; + skos:definition "Concentration of dissolved oxygen" ; + skos:exactMatch MIXS:0000119 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per kilogram, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000162 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_org_nitro" ; + dcterms:title "dissolved organic nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved organic nitrogen" ; + skos:definition "Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2" ; + skos:exactMatch MIXS:0000162 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000174 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "biomass" ; + dcterms:title "biomass" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "biomass" ; + skos:definition "Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements" ; + skos:exactMatch MIXS:0000174 ; + nmdc_sub_schema:expected_value "biomass type;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "ton, kilogram, gram" ; + linkml:is_a "core field" . + +MIXS:0000176 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "bromide" ; + dcterms:title "bromide" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "bromide" ; + skos:definition "Concentration of bromide" ; + skos:exactMatch MIXS:0000176 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "parts per million" ; + linkml:is_a "core field" . + +MIXS:0000177 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chlorophyll" ; + dcterms:title "chlorophyll" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chlorophyll" ; + skos:definition "Concentration of chlorophyll" ; + skos:exactMatch MIXS:0000177 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per cubic meter, microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000178 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diether_lipids" ; + dcterms:title "diether lipids" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "diether lipids" ; + skos:definition "Concentration of diether lipids; can include multiple types of diether lipids" ; + skos:exactMatch MIXS:0000178 ; + nmdc_sub_schema:expected_value "diether lipid name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "nanogram per liter" ; + linkml:is_a "core field" . + +MIXS:0000179 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_hydrogen" ; + dcterms:title "dissolved hydrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved hydrogen" ; + skos:definition "Concentration of dissolved hydrogen" ; + skos:exactMatch MIXS:0000179 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000181 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "phosplipid_fatt_acid" ; + dcterms:title "phospholipid fatty acid" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "phospholipid fatty acid" ; + skos:definition "Concentration of phospholipid fatty acids; can include multiple values" ; + skos:exactMatch MIXS:0000181 ; + nmdc_sub_schema:expected_value "phospholipid fatty acid name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "mole per gram, mole per liter" ; + linkml:is_a "core field" . + +MIXS:0000184 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "silicate" ; + dcterms:title "silicate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "silicate" ; + skos:definition "Concentration of silicate" ; + skos:exactMatch MIXS:0000184 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000310 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "carb_nitro_ratio" ; + dcterms:title "carbon/nitrogen ratio" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "carbon/nitrogen ratio" ; + skos:definition "Ratio of amount or concentrations of carbon to nitrogen" ; + skos:exactMatch MIXS:0000310 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000431 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "magnesium" ; + dcterms:title "magnesium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "magnesium" ; + skos:definition "Concentration of magnesium in the sample" ; + skos:exactMatch MIXS:0000431 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "mole per liter, milligram per liter, parts per million, micromole per kilogram" ; + linkml:is_a "core field" . + +MIXS:0000504 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nitro" ; + dcterms:title "nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "nitrogen" ; + skos:definition "Concentration of nitrogen (total)" ; + skos:exactMatch MIXS:0000504 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +MIXS:0000508 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_carb" ; + dcterms:title "organic carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organic carbon" ; + skos:definition "Concentration of organic carbon" ; + skos:exactMatch MIXS:0000508 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +nmdc_sub_schema:BuildingSettingEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "building_setting_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:DoorCompTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_comp_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:DoorLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:GrowthHabitEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "growth_habit_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:HandidnessEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "handidness_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:HeatDelivLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "heat_deliv_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:HostSexEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "host_sex_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:Integer a owl:Class, + linkml:TypeDefinition ; + rdfs:label "integer" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:integer ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:JgiContTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "JgiContTypeEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + . + +nmdc_sub_schema:OccupDocumentEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "occup_document_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:QuadPosEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "quad_pos_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:SampFloorEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_floor_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:SeasonUseEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "season_use_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:SedimentTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "sediment_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:WallLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "wall_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:WindowLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:YesNoEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "YesNoEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + . + +MIXS:0000094 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "alt" ; + dcterms:title "altitude" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "altitude" ; + skos:definition "Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air" ; + skos:exactMatch MIXS:0000094 ; + nmdc_sub_schema:expected_value "measurement value" ; + linkml:is_a "environment field" . + +MIXS:0000204 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_matter" ; + dcterms:title "organic matter" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organic matter" ; + skos:definition "Concentration of organic matter" ; + skos:exactMatch MIXS:0000204 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000205 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "org_nitro" ; + dcterms:title "organic nitrogen" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organic nitrogen" ; + skos:definition "Concentration of organic nitrogen" ; + skos:exactMatch MIXS:0000205 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter" ; + linkml:is_a "core field" . + +MIXS:0000433 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_org_carb" ; + dcterms:title "dissolved organic carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved organic carbon" ; + skos:definition "Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid" ; + skos:exactMatch MIXS:0000433 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000435 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "density" ; + dcterms:title "density" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "density" ; + skos:definition "Density of the sample, which is its mass per unit volume (aka volumetric mass density)" ; + skos:exactMatch MIXS:0000435 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "gram per cubic meter, gram per cubic centimeter" ; + linkml:is_a "core field" . + +nmdc_sub_schema:CeilCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ceil_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:DoorCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:DoorTypeMetalEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_type_metal_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:FloorCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "floor_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:HeatCoolTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "heat_cool_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:IntWallCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "int_wall_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:LightTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "light_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:ProfilePositionEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "profile_position_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:RelToOxygenEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "RelToOxygenEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:ShadingDeviceCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "shading_device_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:SrDepEnvEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "sr_dep_env_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:SrKerogTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "sr_kerog_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:SrLithologyEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "sr_lithology_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:TidalStageEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "tidal_stage_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + . + +nmdc_sub_schema:TrainStatLocEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "train_stat_loc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:WaterFeatTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "water_feat_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:WindowCondEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_cond_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:WindowMatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_mat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:WindowVertPosEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "window_vert_pos_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:nucleic_acid_sequence_source_field a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nucleic acid sequence source field" ; + rdfs:range nmdc_sub_schema:String . + +MIXS:0000412 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "pressure" ; + dcterms:title "pressure" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pressure" ; + skos:definition "Pressure to which the sample is subject to, in atmospheres" ; + skos:exactMatch MIXS:0000412 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "atmosphere" ; + linkml:is_a "core field" . + +MIXS:0000423 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sulfate" ; + dcterms:title "sulfate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sulfate" ; + skos:definition "Concentration of sulfate in the sample" ; + skos:exactMatch MIXS:0000423 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000424 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sulfide" ; + dcterms:title "sulfide" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sulfide" ; + skos:definition "Concentration of sulfide in the sample" ; + skos:exactMatch MIXS:0000424 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000426 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nitrite" ; + dcterms:title "nitrite" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "nitrite" ; + skos:definition "Concentration of nitrite in the sample" ; + skos:exactMatch MIXS:0000426 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000427 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ammonium" ; + dcterms:title "ammonium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "ammonium" ; + skos:definition "Concentration of ammonium in the sample" ; + skos:exactMatch MIXS:0000427 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000429 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chloride" ; + dcterms:title "chloride" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chloride" ; + skos:definition "Concentration of chloride in the sample" ; + skos:exactMatch MIXS:0000429 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000430 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "potassium" ; + dcterms:title "potassium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "potassium" ; + skos:definition "Concentration of potassium in the sample" ; + skos:exactMatch MIXS:0000430 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000432 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "calcium" ; + dcterms:title "calcium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "calcium" ; + skos:definition "Concentration of calcium in the sample" ; + skos:exactMatch MIXS:0000432 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, micromole per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000434 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_inorg_carb" ; + dcterms:title "dissolved inorganic carbon" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved inorganic carbon" ; + skos:definition "Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter" ; + skos:exactMatch MIXS:0000434 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "microgram per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000436 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "diss_carb_dioxide" ; + dcterms:title "dissolved carbon dioxide" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "dissolved carbon dioxide" ; + skos:definition "Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample" ; + skos:exactMatch MIXS:0000436 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000505 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "phosphate" ; + dcterms:title "phosphate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "phosphate" ; + skos:definition "Concentration of phosphate" ; + skos:exactMatch MIXS:0000505 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter" ; + linkml:is_a "core field" . + +nmdc_sub_schema:DoorMoveEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_move_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:DrainageClassEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "drainage_class_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:FilterTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "filter_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:GenderRestroomEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "gender_restroom_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:RoomCondtEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "room_condt_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:SampCaptStatusEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_capt_status_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:SampSubtypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_subtype_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:SpecificEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "specific_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:WallConstTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "wall_const_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:WallSurfTreatmentEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "wall_surf_treatment_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +MIXS:0000421 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "alkalinity" ; + dcterms:title "alkalinity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "alkalinity" ; + skos:definition "Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate" ; + skos:exactMatch MIXS:0000421 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milliequivalent per liter, milligram per liter" ; + linkml:is_a "core field" . + +MIXS:0000425 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "nitrate" ; + dcterms:title "nitrate" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "nitrate" ; + skos:definition "Concentration of nitrate in the sample" ; + skos:exactMatch MIXS:0000425 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "micromole per liter, milligram per liter, parts per million" ; + linkml:is_a "core field" . + +MIXS:0000428 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "sodium" ; + dcterms:title "sodium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sodium" ; + skos:definition "Sodium concentration in the sample" ; + skos:exactMatch MIXS:0000428 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "milligram per liter, parts per million" ; + linkml:is_a "core field" . + +nmdc_sub_schema:CeilTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ceil_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:FloorStrucEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "floor_struc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:GrowthFacilEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "GrowthFacilEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:HcProducedEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "hc_produced_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:SampCollectPointEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_collect_point_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:SampDisStageEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_dis_stage_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + . + +nmdc_sub_schema:VisMediaEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "vis_media_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:WeekdayEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "weekday_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + . + +nmdc_sub_schema:attribute a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "attribute" ; + rdfs:range nmdc_sub_schema:String ; + skos:altLabel "characteristic", + "field", + "key", + "property", + "template field" ; + skos:definition "A attribute of a biosample. Examples: depth, habitat, material. For NMDC, attributes SHOULD be mapped to terms within a MIxS template" . + +MIXS:0000754 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "perturbation" ; + dcterms:title "perturbation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "perturbation" ; + skos:definition "Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types" ; + skos:exactMatch MIXS:0000754 ; + nmdc_sub_schema:expected_value "perturbation type name;perturbation interval and duration" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001001 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ph" ; + dcterms:title "pH" ; + rdfs:range nmdc_sub_schema:Double ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pH" ; + skos:definition "Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid" ; + skos:exactMatch MIXS:0001001 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001106 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ph_meth" ; + dcterms:title "pH method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "pH method" ; + skos:definition "Reference or method used in determining ph" ; + skos:exactMatch MIXS:0001106 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +nmdc_sub_schema:BioticRelationshipEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "BioticRelationshipEnum", + "biotic_relationship_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:DrawingsEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "drawings_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:ExtWallOrientEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ext_wall_orient_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:ExtWindowOrientEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ext_window_orient_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:IndoorSpaceEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "indoor_space_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:IndoorSurfEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "indoor_surf_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:SampIdNewTermsMixin a owl:Class, + linkml:ClassDefinition ; + rdfs:label "SampIdNewTermsMixin" ; + dcterms:title "SampId New Terms" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty nmdc_sub_schema:sample_link ], + linkml:mixin ; + skos:definition "Mixin with SampIdNew Terms" ; + linkml:attributes "{}" . + +nmdc_sub_schema:SoilHorizonEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "soil_horizon_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:SurfAirContEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "surf_air_cont_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:dh_section a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "dh_section" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "dh_section grouping slot" . + +nmdc_sub_schema:environment_field a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "environment field" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "field describing environmental aspect of a sample" . + +nmdc_sub_schema:BiolStatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "biol_stat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:FloorWaterMoldEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "floor_water_mold_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:HcrEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "hcr_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + . + +nmdc_sub_schema:MechStrucEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "mech_struc_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:RoomSampPosEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "room_samp_pos_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:SampWeatherEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "samp_weather_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:TillageEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "tillage_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + . + +MIXS:0000116 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_store_dur" ; + dcterms:title "sample storage duration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample storage duration" ; + skos:definition "Duration for which the sample was stored" ; + skos:exactMatch MIXS:0000116 ; + nmdc_sub_schema:expected_value "duration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0000755 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_store_loc" ; + dcterms:title "sample storage location" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample storage location" ; + skos:definition "Location at which sample was stored, usually name of a specific freezer/room" ; + skos:exactMatch MIXS:0000755 ; + nmdc_sub_schema:expected_value "location name" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +nmdc_sub_schema:CeilFinishMatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ceil_finish_mat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:DoorMatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_mat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:DoorTypeWoodEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "door_type_wood_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:ecosystem a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ecosystem" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:gold_path_field ; + skos:definition "An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path." ; + linkml:is_a "gold_path_field" . + +nmdc_sub_schema:ecosystem_category a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ecosystem_category" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:gold_path_field ; + skos:definition "Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path." ; + linkml:is_a "gold_path_field" . + +nmdc_sub_schema:ecosystem_subtype a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ecosystem_subtype" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:gold_path_field ; + skos:definition "Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path." ; + linkml:is_a "gold_path_field" . + +nmdc_sub_schema:ecosystem_type a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "ecosystem_type" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:gold_path_field ; + skos:definition "Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path." ; + linkml:is_a "gold_path_field" . + +nmdc_sub_schema:env_package a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "env_package" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:attribute ; + skos:altLabel "environmental package" ; + skos:definition "MIxS extension for reporting of measurements and observations obtained from one or more of the environments where the sample was obtained. All environmental packages listed here are further defined in separate subtables. By giving the name of the environmental package, a selection of fields can be made from the subtables and can be reported" ; + linkml:is_a "attribute" . + +nmdc_sub_schema:specific_ecosystem a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "specific_ecosystem" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:gold_path_field ; + skos:definition "Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path." ; + linkml:is_a "gold_path_field" . + +MIXS:0000001 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_size" ; + dcterms:title "amount or size of sample collected" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "amount or size of sample collected" ; + skos:definition "The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected." ; + skos:exactMatch MIXS:0000001 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:preferred_unit "millliter, gram, milligram, liter" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000002 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_collec_device" ; + dcterms:title "sample collection device" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "sample collection device" ; + skos:definition "The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094)." ; + skos:exactMatch MIXS:0000002 ; + nmdc_sub_schema:expected_value "device name" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000016 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_mat_process" ; + dcterms:title "sample material processing" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "sample material processing" ; + skos:definition "A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed." ; + skos:exactMatch MIXS:0000016 ; + nmdc_sub_schema:expected_value "text" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000017 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "size_frac" ; + dcterms:title "size fraction selected" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "size fraction selected" ; + skos:definition "Filtering pore size used in sample preparation" ; + skos:exactMatch MIXS:0000017 ; + nmdc_sub_schema:expected_value "filter size value range" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000110 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_store_temp" ; + dcterms:title "sample storage temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "sample storage temperature" ; + skos:definition "Temperature at which sample was stored, e.g. -80 degree Celsius" ; + skos:exactMatch MIXS:0000110 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "core field" . + +MIXS:0000183 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "salinity" ; + dcterms:title "salinity" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "salinity" ; + skos:definition "The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater." ; + skos:exactMatch MIXS:0000183 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:occurrence "1" ; + nmdc_sub_schema:preferred_unit "practical salinity unit, percentage" ; + linkml:is_a "core field" . + +MIXS:0000751 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "chem_administration" ; + dcterms:title "chemical administration" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "chemical administration" ; + skos:definition "List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi" ; + skos:exactMatch MIXS:0000751 ; + nmdc_sub_schema:expected_value "CHEBI;timestamp" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0000752 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "misc_param" ; + dcterms:title "miscellaneous parameter" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "miscellaneous parameter" ; + skos:definition "Any other measurement performed or parameter collected, that is not listed here" ; + skos:exactMatch MIXS:0000752 ; + nmdc_sub_schema:expected_value "parameter name;measurement value" ; + nmdc_sub_schema:occurrence "m" ; + linkml:is_a "core field" . + +MIXS:0001225 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_collec_method" ; + dcterms:title "sample collection method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "sample collection method" ; + skos:definition "The method employed for collecting the sample." ; + skos:exactMatch MIXS:0001225 ; + nmdc_sub_schema:expected_value "PMID,DOI,url , or text" ; + linkml:is_a "nucleic acid sequence source field" . + +nmdc_sub_schema:Double a owl:Class, + linkml:TypeDefinition ; + rdfs:label "double" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:double ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:RoomConnectedEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "room_connected_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:WallFinishMatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "wall_finish_mat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + . + +MIXS:0000008 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "experimental_factor" ; + dcterms:title "experimental factor" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:investigation_field ; + skos:altLabel "experimental factor" ; + skos:definition "Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI" ; + skos:exactMatch MIXS:0000008 ; + nmdc_sub_schema:expected_value "text or EFO and/or OBI" ; + linkml:is_a "investigation field" . + +MIXS:0000009 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "lat_lon" ; + dcterms:title "geographic location (latitude and longitude)" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "geographic location (latitude and longitude)" ; + skos:definition "The geographical origin of the sample as defined by latitude and longitude. The values should be reported in decimal degrees and in WGS84 system" ; + skos:exactMatch MIXS:0000009 ; + nmdc_sub_schema:expected_value "decimal degrees, limit to 8 decimal points" ; + linkml:is_a "environment field" . + +MIXS:0000010 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "geo_loc_name" ; + dcterms:title "geographic location (country and/or sea,region)" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "geographic location (country and/or sea,region)" ; + skos:definition "The geographical origin of the sample as defined by the country or sea name followed by specific region name. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology (http://purl.bioontology.org/ontology/GAZ)" ; + skos:exactMatch MIXS:0000010 ; + nmdc_sub_schema:expected_value "country or sea name (INSDC or GAZ): region(GAZ), specific location name" ; + linkml:is_a "environment field" . + +MIXS:0000011 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "collection_date" ; + dcterms:title "collection date" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "collection date" ; + skos:definition "The time of sampling, either as an instance (single point in time) or interval. In case no exact time is available, the date/time can be right truncated i.e. all of these are valid times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008; Except: 2008-01; 2008 all are ISO8601 compliant" ; + skos:exactMatch MIXS:0000011 ; + nmdc_sub_schema:expected_value "date and time" ; + linkml:is_a "environment field" . + +MIXS:0000012 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "env_broad_scale" ; + dcterms:title "broad-scale environmental context" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "broad-scale environmental context" ; + skos:definition "Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS" ; + skos:exactMatch MIXS:0000012 ; + nmdc_sub_schema:expected_value "The major environment type(s) where the sample was collected. Recommend subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one or more pipes." ; + linkml:is_a "environment field" . + +MIXS:0000013 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "env_local_scale" ; + dcterms:title "local environmental context" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "local environmental context" ; + skos:definition "Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS." ; + skos:exactMatch MIXS:0000013 ; + nmdc_sub_schema:expected_value "Environmental entities having causal influences upon the entity at time of sampling." ; + linkml:is_a "environment field" . + +MIXS:0000014 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "env_medium" ; + dcterms:title "environmental medium" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "environmental medium" ; + skos:definition "Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top)." ; + skos:exactMatch MIXS:0000014 ; + nmdc_sub_schema:expected_value "The material displaced by the entity at time of sampling. Recommend subclasses of environmental material [ENVO:00010483]." ; + linkml:is_a "environment field" . + +MIXS:0000018 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "depth" ; + dcterms:title "depth" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "depth" ; + skos:definition "The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples." ; + skos:exactMatch MIXS:0000018 ; + nmdc_sub_schema:expected_value "measurement value" ; + linkml:is_a "environment field" . + +MIXS:0000093 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "elev" ; + dcterms:title "elevation" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "elevation" ; + skos:definition "Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit." ; + skos:exactMatch MIXS:0000093 ; + nmdc_sub_schema:expected_value "measurement value" ; + linkml:is_a "environment field" . + +MIXS:0000103 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "organism_count" ; + dcterms:title "organism count" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "organism count" ; + skos:definition "Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)" ; + skos:exactMatch MIXS:0000103 ; + nmdc_sub_schema:expected_value "organism name;measurement value;enumeration" ; + nmdc_sub_schema:occurrence "m" ; + nmdc_sub_schema:preferred_unit "number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter" ; + linkml:is_a "core field" . + +MIXS:0000113 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "temp" ; + dcterms:title "temperature" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:environment_field ; + skos:altLabel "temperature" ; + skos:definition "Temperature of the sample at the time of sampling." ; + skos:exactMatch MIXS:0000113 ; + nmdc_sub_schema:expected_value "measurement value" ; + nmdc_sub_schema:preferred_unit "degree Celsius" ; + linkml:is_a "environment field" . + +MIXS:0000321 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "horizon_meth" ; + dcterms:title "soil horizon method" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "soil horizon method" ; + skos:definition "Reference or method used in determining the horizon" ; + skos:exactMatch MIXS:0000321 ; + nmdc_sub_schema:expected_value "PMID,DOI or url" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +nmdc_sub_schema:DnaSampleFormatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "DnaSampleFormatEnum", + "dna_sample_format_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:RnaSampleFormatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "RnaSampleFormatEnum", + "rna_sample_format_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:ShadingDeviceTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "shading_device_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:BuildDocsEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "build_docs_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:BuildOccupTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "build_occup_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:CeilTextureEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "ceil_texture_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:DhInterface a owl:Class, + linkml:ClassDefinition ; + rdfs:label "DhInterface" ; + dcterms:title "Dh Root Interface" ; + skos:definition "One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various standards, user facilities or analysis types" ; + linkml:attributes "{}" . + +nmdc_sub_schema:DhMultiviewCommonColumnsMixin a owl:Class, + linkml:ClassDefinition ; + rdfs:label "DhMultiviewCommonColumnsMixin" ; + dcterms:title "Dh Mutliview Common Columns" ; + rdfs:subClassOf [ a owl:Class ; + owl:intersectionOf ( [ a owl:Restriction ; + owl:allValuesFrom nmdc_sub_schema:AnalysisTypeEnum ; + owl:onProperty ] [ a owl:Restriction ; + owl:onProperty ; + owl:someValuesFrom nmdc_sub_schema:AnalysisTypeEnum ] ) ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0001107 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:String ; + owl:onProperty MIXS:0000026 ], + [ a owl:Restriction ; + owl:maxQualifiedCardinality 1 ; + owl:onClass nmdc_sub_schema:OxyStatSampEnum ; + owl:onProperty MIXS:0000753 ], + linkml:mixin ; + skos:definition "Mixin with DhMutliviewCommon Columns" ; + linkml:attributes "{}" . + +nmdc_sub_schema:LithologyEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "lithology_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:WallTextureEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "wall_texture_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:Float a owl:Class, + linkml:TypeDefinition ; + rdfs:label "float" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:float ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + +nmdc_sub_schema:SurfMaterialEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "surf_material_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +MIXS:0000026 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "source_mat_id" ; + dcterms:title "source material identifiers" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:nucleic_acid_sequence_source_field ; + skos:altLabel "source material identifiers" ; + skos:definition "A unique identifier assigned to a material sample (as defined by http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular digital record of a material sample) used for extracting nucleic acids, and subsequent sequencing. The identifier can refer either to the original material collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher, /bio_material, or /culture_collection may or may not share the same value as the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id may both contain 'UAM:Herps:14' , referring to both the specimen voucher and sampled tissue with the same identifier. However, the /culture_collection qualifier may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id would refer to an identifier from some derived culture from which the nucleic acids were extracted (e.g. xatc123 or ark:/2154/R2)." ; + skos:exactMatch MIXS:0000026 ; + nmdc_sub_schema:expected_value "for cultures of microorganisms: identifiers for two culture collections; for other material a unique arbitrary identifer" ; + linkml:is_a "nucleic acid sequence source field" . + +MIXS:0000753 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "oxy_stat_samp" ; + dcterms:title "oxygenation status of sample" ; + rdfs:range nmdc_sub_schema:OxyStatSampEnum ; + rdfs:subPropertyOf nmdc_sub_schema:core_field ; + skos:altLabel "oxygenation status of sample" ; + skos:definition "Oxygenation status of sample" ; + skos:exactMatch MIXS:0000753 ; + nmdc_sub_schema:expected_value "enumeration" ; + nmdc_sub_schema:occurrence "1" ; + linkml:is_a "core field" . + +MIXS:0001107 a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "samp_name" ; + dcterms:title "sample name" ; + rdfs:range nmdc_sub_schema:String ; + rdfs:subPropertyOf nmdc_sub_schema:investigation_field ; + skos:altLabel "sample name" ; + skos:definition "A local identifier or name that for the material sample used for extracting nucleic acids, and subsequent sequencing. It can refer either to the original material collected or to any derived sub-samples. It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible. INSDC requires every sample name from a single Submitter to be unique. Use of a globally unique identifier for the field source_mat_id is recommended in addition to sample_name." ; + skos:exactMatch MIXS:0001107 ; + nmdc_sub_schema:expected_value "text" ; + linkml:is_a "investigation field" . + +nmdc_sub_schema:DeposEnvEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "depos_env_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +linkml:TypeDefinition a owl:Class ; + rdfs:label "type_definition" ; + linkml:attributes "{}" ; + linkml:is_a "element" ; + linkml:mixins "type_expression" . + +linkml:topValue a owl:DatatypeProperty ; + rdfs:label "value" . + +nmdc_sub_schema:FloorFinishMatEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "floor_finish_mat_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:OxyStatSampEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "OxyStatSampEnum", + "oxy_stat_samp_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + , + . + +nmdc_sub_schema:SrGeolAgeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "sr_geol_age_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:EcosystemSubtypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EcosystemSubtypeEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:HcrGeolAgeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "hcr_geol_age_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +linkml:ClassDefinition a owl:Class ; + rdfs:label "class_definition" ; + linkml:attributes "{}" ; + linkml:is_a "definition" ; + linkml:mixins "class_expression" . + +nmdc_sub_schema:SpecificEcosystemEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "SpecificEcosystemEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:RoomTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "room_type_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:FaoClassEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "fao_class_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:PlantSexEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "plant_sex_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:CurLandUseEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "cur_land_use_enum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:AnalysisTypeEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "AnalysisTypeEnum", + "analysis_type_enum" ; + owl:unionOf ( ), + ( ) ; + linkml:permissible_values , + , + , + , + . + +nmdc_sub_schema:EnvBroadScaleSoilEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EnvBroadScaleSoilEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:EnvLocalScaleSoilEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EnvLocalScaleSoilEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:EnvMediumSoilEnum a owl:Class, + linkml:EnumDefinition ; + rdfs:label "EnvMediumSoilEnum" ; + owl:unionOf ( ) ; + linkml:permissible_values , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + , + . + +nmdc_sub_schema:core_field a owl:ObjectProperty, + linkml:SlotDefinition ; + rdfs:label "core field" ; + rdfs:range nmdc_sub_schema:String ; + skos:definition "basic fields" . + +linkml:SlotDefinition a owl:Class ; + rdfs:label "slot_definition" ; + linkml:attributes "{}" ; + linkml:is_a "definition" ; + linkml:mixins "slot_expression" . + +nmdc_sub_schema:String a owl:Class, + linkml:TypeDefinition ; + rdfs:label "string" ; + rdfs:subClassOf [ a owl:Restriction ; + owl:onDataRange xsd:string ; + owl:onProperty linkml:topValue ; + owl:qualifiedCardinality 1 ] . + + diff --git a/src/nmdc_submission_schema/datamodel/nmdc_submission_schema.py b/src/nmdc_submission_schema/datamodel/nmdc_submission_schema.py new file mode 100644 index 00000000..967c5548 --- /dev/null +++ b/src/nmdc_submission_schema/datamodel/nmdc_submission_schema.py @@ -0,0 +1,18325 @@ +# Auto generated from nmdc_submission_schema.yaml by pythongen.py version: 0.9.0 +# Generation date: 2023-06-12T11:35:34 +# Schema: nmdc_submission_schema +# +# id: https://example.com/nmdc_submission_schema +# description: Schema for creating Data Harmonizer interfaces for biosamples based on MIxS and other standards +# license: + +import dataclasses +import sys +import re +from jsonasobj2 import JsonObj, as_dict +from typing import Optional, List, Union, Dict, ClassVar, Any +from dataclasses import dataclass +from linkml_runtime.linkml_model.meta import EnumDefinition, PermissibleValue, PvFormulaOptions + +from linkml_runtime.utils.slot import Slot +from linkml_runtime.utils.metamodelcore import empty_list, empty_dict, bnode +from linkml_runtime.utils.yamlutils import YAMLRoot, extended_str, extended_float, extended_int +from linkml_runtime.utils.dataclass_extensions_376 import dataclasses_init_fn_with_kwargs +from linkml_runtime.utils.formatutils import camelcase, underscore, sfx +from linkml_runtime.utils.enumerations import EnumDefinitionImpl +from rdflib import Namespace, URIRef +from linkml_runtime.utils.curienamespace import CurieNamespace +from linkml_runtime.utils.metamodelcore import Bool, Curie, Decimal, ElementIdentifier, NCName, NodeIdentifier, URI, URIorCURIE, XSDDate, XSDDateTime, XSDTime + +metamodel_version = "1.7.0" +version = "0.0.0" + +# Overwrite dataclasses _init_fn to add **kwargs in __init__ +dataclasses._init_fn = dataclasses_init_fn_with_kwargs + +# Namespaces +CHEBI = CurieNamespace('CHEBI', 'http://purl.obolibrary.org/obo/CHEBI_') +CHMO = CurieNamespace('CHMO', 'http://purl.obolibrary.org/obo/CHMO_') +COG = CurieNamespace('COG', 'https://unknown.to.linter.org/') +EC = CurieNamespace('EC', 'https://unknown.to.linter.org/') +EFO = CurieNamespace('EFO', 'http://identifiers.org/efo/') +GO = CurieNamespace('GO', 'http://purl.obolibrary.org/obo/GO_') +GOLD = CurieNamespace('GOLD', 'http://identifiers.org/gold/') +ISA = CurieNamespace('ISA', 'https://unknown.to.linter.org/') +KEGG_COMPOUND = CurieNamespace('KEGG_COMPOUND', 'http://identifiers.org/kegg.compound/') +KEGG_ORTHOLOGY = CurieNamespace('KEGG_ORTHOLOGY', 'http://identifiers.org/kegg.orthology/') +KEGG_REACTION = CurieNamespace('KEGG_REACTION', 'http://identifiers.org/kegg.reaction/') +KEGG_PATHWAY = CurieNamespace('KEGG_PATHWAY', 'http://identifiers.org/kegg.pathway/') +MIXS = CurieNamespace('MIXS', 'https://w3id.org/mixs/') +MIXS_YAML = CurieNamespace('MIXS_yaml', 'https://raw.githubusercontent.com/microbiomedata/mixs/main/model/schema/') +METACYC = CurieNamespace('MetaCyc', 'https://identifiers.org/metacyc.reaction/') +METANETX = CurieNamespace('MetaNetX', 'https://unknown.to.linter.org/') +NCBITAXON = CurieNamespace('NCBITaxon', 'http://purl.obolibrary.org/obo/NCBITaxon_') +NCIT = CurieNamespace('NCIT', 'http://purl.obolibrary.org/obo/NCIT_') +OBI = CurieNamespace('OBI', 'http://purl.obolibrary.org/obo/OBI_') +RHEA = CurieNamespace('RHEA', 'http://identifiers.org/rhea/') +RETRORULES = CurieNamespace('RetroRules', 'https://unknown.to.linter.org/') +SEED = CurieNamespace('SEED', 'http://identifiers.org/seed/') +UO = CurieNamespace('UO', 'http://purl.obolibrary.org/obo/UO_') +UNIPROTKB = CurieNamespace('UniProtKB', 'https://identifiers.org/uniprot/') +BARE = CurieNamespace('bare', 'https://unknown.to.linter.org/') +BIOLINK = CurieNamespace('biolink', 'https://w3id.org/biolink/vocab/') +DCTERMS = CurieNamespace('dcterms', 'http://purl.org/dc/terms/') +GTPO = CurieNamespace('gtpo', 'https://unknown.to.linter.org/') +JGI = CurieNamespace('jgi', 'https://unknown.to.linter.org/') +LINKML = CurieNamespace('linkml', 'https://w3id.org/linkml/') +NMDC = CurieNamespace('nmdc', 'https://w3id.org/nmdc/') +NMDC_SUB_SCHEMA = CurieNamespace('nmdc_sub_schema', 'https://example.com/nmdc_sub_schema/') +NMDC_YAML = CurieNamespace('nmdc_yaml', 'https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/') +PROV = CurieNamespace('prov', 'http://www.w3.org/ns/prov#') +QUD = CurieNamespace('qud', 'http://qudt.org/1.1/schema/qudt#') +RDF = CurieNamespace('rdf', 'http://www.w3.org/1999/02/22-rdf-syntax-ns#') +RDFS = CurieNamespace('rdfs', 'http://www.w3.org/2000/01/rdf-schema#') +SCHEMA = CurieNamespace('schema', 'http://schema.org/') +SHEX = CurieNamespace('shex', 'http://www.w3.org/ns/shex#') +SIO = CurieNamespace('sio', 'http://semanticscience.org/resource/SIO_') +SKOS = CurieNamespace('skos', 'http://www.w3.org/2004/02/skos/core#') +WGS84 = CurieNamespace('wgs84', 'http://www.w3.org/2003/01/geo/wgs84_pos#') +XSD = CurieNamespace('xsd', 'http://www.w3.org/2001/XMLSchema#') +DEFAULT_ = NMDC_SUB_SCHEMA + + +# Types +class Unit(str): + """ a string representation of a unit """ + type_class_uri = XSD.string + type_class_curie = "xsd:string" + type_name = "unit" + type_model_uri = NMDC_SUB_SCHEMA.Unit + + +class DecimalDegree(float): + """ a float representation of a degree of rotation """ + type_class_uri = XSD.decimal + type_class_curie = "xsd:decimal" + type_name = "decimal degree" + type_model_uri = NMDC_SUB_SCHEMA.DecimalDegree + + +class LanguageCode(str): + """ a string representation of a language """ + type_class_uri = XSD.language + type_class_curie = "xsd:language" + type_name = "language code" + type_model_uri = NMDC_SUB_SCHEMA.LanguageCode + + +class String(str): + """ A character string """ + type_class_uri = XSD.string + type_class_curie = "xsd:string" + type_name = "string" + type_model_uri = NMDC_SUB_SCHEMA.String + + +class Integer(int): + """ An integer """ + type_class_uri = XSD.integer + type_class_curie = "xsd:integer" + type_name = "integer" + type_model_uri = NMDC_SUB_SCHEMA.Integer + + +class Boolean(Bool): + """ A binary (true or false) value """ + type_class_uri = XSD.boolean + type_class_curie = "xsd:boolean" + type_name = "boolean" + type_model_uri = NMDC_SUB_SCHEMA.Boolean + + +class Float(float): + """ A real number that conforms to the xsd:float specification """ + type_class_uri = XSD.float + type_class_curie = "xsd:float" + type_name = "float" + type_model_uri = NMDC_SUB_SCHEMA.Float + + +class Double(float): + """ A real number that conforms to the xsd:double specification """ + type_class_uri = XSD.double + type_class_curie = "xsd:double" + type_name = "double" + type_model_uri = NMDC_SUB_SCHEMA.Double + + +class Decimal(Decimal): + """ A real number with arbitrary precision that conforms to the xsd:decimal specification """ + type_class_uri = XSD.decimal + type_class_curie = "xsd:decimal" + type_name = "decimal" + type_model_uri = NMDC_SUB_SCHEMA.Decimal + + +class Time(XSDTime): + """ A time object represents a (local) time of day, independent of any particular day """ + type_class_uri = XSD.dateTime + type_class_curie = "xsd:dateTime" + type_name = "time" + type_model_uri = NMDC_SUB_SCHEMA.Time + + +class Date(XSDDate): + """ a date (year, month and day) in an idealized calendar """ + type_class_uri = XSD.date + type_class_curie = "xsd:date" + type_name = "date" + type_model_uri = NMDC_SUB_SCHEMA.Date + + +class Datetime(XSDDateTime): + """ The combination of a date and time """ + type_class_uri = XSD.dateTime + type_class_curie = "xsd:dateTime" + type_name = "datetime" + type_model_uri = NMDC_SUB_SCHEMA.Datetime + + +class DateOrDatetime(str): + """ Either a date or a datetime """ + type_class_uri = LINKML.DateOrDatetime + type_class_curie = "linkml:DateOrDatetime" + type_name = "date_or_datetime" + type_model_uri = NMDC_SUB_SCHEMA.DateOrDatetime + + +class Uriorcurie(URIorCURIE): + """ a URI or a CURIE """ + type_class_uri = XSD.anyURI + type_class_curie = "xsd:anyURI" + type_name = "uriorcurie" + type_model_uri = NMDC_SUB_SCHEMA.Uriorcurie + + +class Curie(Curie): + """ a compact URI """ + type_class_uri = XSD.string + type_class_curie = "xsd:string" + type_name = "curie" + type_model_uri = NMDC_SUB_SCHEMA.Curie + + +class Uri(URI): + """ a complete URI """ + type_class_uri = XSD.anyURI + type_class_curie = "xsd:anyURI" + type_name = "uri" + type_model_uri = NMDC_SUB_SCHEMA.Uri + + +class Ncname(NCName): + """ Prefix part of CURIE """ + type_class_uri = XSD.string + type_class_curie = "xsd:string" + type_name = "ncname" + type_model_uri = NMDC_SUB_SCHEMA.Ncname + + +class Objectidentifier(ElementIdentifier): + """ A URI or CURIE that represents an object in the model. """ + type_class_uri = SHEX.iri + type_class_curie = "shex:iri" + type_name = "objectidentifier" + type_model_uri = NMDC_SUB_SCHEMA.Objectidentifier + + +class Nodeidentifier(NodeIdentifier): + """ A URI, CURIE or BNODE that represents a node in a model. """ + type_class_uri = SHEX.nonLiteral + type_class_curie = "shex:nonLiteral" + type_name = "nodeidentifier" + type_model_uri = NMDC_SUB_SCHEMA.Nodeidentifier + + +# Class references +class DhMultiviewCommonColumnsMixinSampName(extended_str): + pass + + +class NamedThingId(URIorCURIE): + pass + + +@dataclass +class DhMultiviewCommonColumnsMixin(YAMLRoot): + """ + Mixin with DhMutliviewCommon Columns + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin + class_class_curie: ClassVar[str] = "nmdc_sub_schema:DhMultiviewCommonColumnsMixin" + class_name: ClassVar[str] = "DhMultiviewCommonColumnsMixin" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self._is_empty(self.samp_name): + self.MissingRequiredField("samp_name") + if not isinstance(self.samp_name, DhMultiviewCommonColumnsMixinSampName): + self.samp_name = DhMultiviewCommonColumnsMixinSampName(self.samp_name) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + super().__post_init__(**kwargs) + + +@dataclass +class SampIdNewTermsMixin(YAMLRoot): + """ + Mixin with SampIdNew Terms + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SampIdNewTermsMixin + class_class_curie: ClassVar[str] = "nmdc_sub_schema:SampIdNewTermsMixin" + class_name: ClassVar[str] = "SampIdNewTermsMixin" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SampIdNewTermsMixin + + sample_link: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + super().__post_init__(**kwargs) + + +@dataclass +class SoilMixsInspiredMixin(YAMLRoot): + """ + Mixin with SoilMixsInspired Terms + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SoilMixsInspiredMixin + class_class_curie: ClassVar[str] = "nmdc_sub_schema:SoilMixsInspiredMixin" + class_name: ClassVar[str] = "SoilMixsInspiredMixin" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SoilMixsInspiredMixin + + collection_date_inc: Optional[str] = None + collection_time: Optional[str] = None + collection_time_inc: Optional[str] = None + experimental_factor_other: Optional[str] = None + filter_method: Optional[str] = None + isotope_exposure: Optional[str] = None + micro_biomass_c_meth: Optional[str] = None + micro_biomass_n_meth: Optional[str] = None + microbial_biomass_c: Optional[str] = None + microbial_biomass_n: Optional[str] = None + non_microb_biomass: Optional[str] = None + non_microb_biomass_method: Optional[str] = None + org_nitro_method: Optional[str] = None + other_treatment: Optional[str] = None + start_date_inc: Optional[str] = None + start_time_inc: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self.collection_date_inc is not None and not isinstance(self.collection_date_inc, str): + self.collection_date_inc = str(self.collection_date_inc) + + if self.collection_time is not None and not isinstance(self.collection_time, str): + self.collection_time = str(self.collection_time) + + if self.collection_time_inc is not None and not isinstance(self.collection_time_inc, str): + self.collection_time_inc = str(self.collection_time_inc) + + if self.experimental_factor_other is not None and not isinstance(self.experimental_factor_other, str): + self.experimental_factor_other = str(self.experimental_factor_other) + + if self.filter_method is not None and not isinstance(self.filter_method, str): + self.filter_method = str(self.filter_method) + + if self.isotope_exposure is not None and not isinstance(self.isotope_exposure, str): + self.isotope_exposure = str(self.isotope_exposure) + + if self.micro_biomass_c_meth is not None and not isinstance(self.micro_biomass_c_meth, str): + self.micro_biomass_c_meth = str(self.micro_biomass_c_meth) + + if self.micro_biomass_n_meth is not None and not isinstance(self.micro_biomass_n_meth, str): + self.micro_biomass_n_meth = str(self.micro_biomass_n_meth) + + if self.microbial_biomass_c is not None and not isinstance(self.microbial_biomass_c, str): + self.microbial_biomass_c = str(self.microbial_biomass_c) + + if self.microbial_biomass_n is not None and not isinstance(self.microbial_biomass_n, str): + self.microbial_biomass_n = str(self.microbial_biomass_n) + + if self.non_microb_biomass is not None and not isinstance(self.non_microb_biomass, str): + self.non_microb_biomass = str(self.non_microb_biomass) + + if self.non_microb_biomass_method is not None and not isinstance(self.non_microb_biomass_method, str): + self.non_microb_biomass_method = str(self.non_microb_biomass_method) + + if self.org_nitro_method is not None and not isinstance(self.org_nitro_method, str): + self.org_nitro_method = str(self.org_nitro_method) + + if self.other_treatment is not None and not isinstance(self.other_treatment, str): + self.other_treatment = str(self.other_treatment) + + if self.start_date_inc is not None and not isinstance(self.start_date_inc, str): + self.start_date_inc = str(self.start_date_inc) + + if self.start_time_inc is not None and not isinstance(self.start_time_inc, str): + self.start_time_inc = str(self.start_time_inc) + + if self.collection_date_inc is not None and not isinstance(self.collection_date_inc, str): + self.collection_date_inc = str(self.collection_date_inc) + + if self.collection_time is not None and not isinstance(self.collection_time, str): + self.collection_time = str(self.collection_time) + + if self.collection_time_inc is not None and not isinstance(self.collection_time_inc, str): + self.collection_time_inc = str(self.collection_time_inc) + + if self.experimental_factor_other is not None and not isinstance(self.experimental_factor_other, str): + self.experimental_factor_other = str(self.experimental_factor_other) + + if self.filter_method is not None and not isinstance(self.filter_method, str): + self.filter_method = str(self.filter_method) + + if self.isotope_exposure is not None and not isinstance(self.isotope_exposure, str): + self.isotope_exposure = str(self.isotope_exposure) + + if self.micro_biomass_c_meth is not None and not isinstance(self.micro_biomass_c_meth, str): + self.micro_biomass_c_meth = str(self.micro_biomass_c_meth) + + if self.micro_biomass_n_meth is not None and not isinstance(self.micro_biomass_n_meth, str): + self.micro_biomass_n_meth = str(self.micro_biomass_n_meth) + + if self.microbial_biomass_c is not None and not isinstance(self.microbial_biomass_c, str): + self.microbial_biomass_c = str(self.microbial_biomass_c) + + if self.microbial_biomass_n is not None and not isinstance(self.microbial_biomass_n, str): + self.microbial_biomass_n = str(self.microbial_biomass_n) + + if self.non_microb_biomass is not None and not isinstance(self.non_microb_biomass, str): + self.non_microb_biomass = str(self.non_microb_biomass) + + if self.non_microb_biomass_method is not None and not isinstance(self.non_microb_biomass_method, str): + self.non_microb_biomass_method = str(self.non_microb_biomass_method) + + if self.org_nitro_method is not None and not isinstance(self.org_nitro_method, str): + self.org_nitro_method = str(self.org_nitro_method) + + if self.other_treatment is not None and not isinstance(self.other_treatment, str): + self.other_treatment = str(self.other_treatment) + + if self.start_date_inc is not None and not isinstance(self.start_date_inc, str): + self.start_date_inc = str(self.start_date_inc) + + if self.start_time_inc is not None and not isinstance(self.start_time_inc, str): + self.start_time_inc = str(self.start_time_inc) + + super().__post_init__(**kwargs) + + +class DhInterface(YAMLRoot): + """ + One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various + standards, user facilities or analysis types + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.DhInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:DhInterface" + class_name: ClassVar[str] = "DhInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.DhInterface + + +@dataclass +class AirInterface(DhInterface): + """ + air dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.AirInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:AirInterface" + class_name: ClassVar[str] = "AirInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.AirInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + air_PM_concen: Optional[str] = None + alt: Optional[str] = None + barometric_press: Optional[str] = None + carb_dioxide: Optional[str] = None + carb_monoxide: Optional[str] = None + chem_administration: Optional[str] = None + collection_date: Optional[str] = None + depth: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + geo_loc_name: Optional[str] = None + horizon_meth: Optional[str] = None + humidity: Optional[str] = None + lat_lon: Optional[str] = None + methane: Optional[str] = None + misc_param: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + oxygen: Optional[str] = None + perturbation: Optional[str] = None + pollutants: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + size_frac: Optional[str] = None + solar_irradiance: Optional[str] = None + specific_ecosystem: Optional[str] = None + temp: Optional[str] = None + ventilation_rate: Optional[str] = None + ventilation_type: Optional[str] = None + volatile_org_comp: Optional[str] = None + wind_direction: Optional[str] = None + wind_speed: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.air_PM_concen is not None and not isinstance(self.air_PM_concen, str): + self.air_PM_concen = str(self.air_PM_concen) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.barometric_press is not None and not isinstance(self.barometric_press, str): + self.barometric_press = str(self.barometric_press) + + if self.carb_dioxide is not None and not isinstance(self.carb_dioxide, str): + self.carb_dioxide = str(self.carb_dioxide) + + if self.carb_monoxide is not None and not isinstance(self.carb_monoxide, str): + self.carb_monoxide = str(self.carb_monoxide) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.humidity is not None and not isinstance(self.humidity, str): + self.humidity = str(self.humidity) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.oxygen is not None and not isinstance(self.oxygen, str): + self.oxygen = str(self.oxygen) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.pollutants is not None and not isinstance(self.pollutants, str): + self.pollutants = str(self.pollutants) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.solar_irradiance is not None and not isinstance(self.solar_irradiance, str): + self.solar_irradiance = str(self.solar_irradiance) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.ventilation_rate is not None and not isinstance(self.ventilation_rate, str): + self.ventilation_rate = str(self.ventilation_rate) + + if self.ventilation_type is not None and not isinstance(self.ventilation_type, str): + self.ventilation_type = str(self.ventilation_type) + + if self.volatile_org_comp is not None and not isinstance(self.volatile_org_comp, str): + self.volatile_org_comp = str(self.volatile_org_comp) + + if self.wind_direction is not None and not isinstance(self.wind_direction, str): + self.wind_direction = str(self.wind_direction) + + if self.wind_speed is not None and not isinstance(self.wind_speed, str): + self.wind_speed = str(self.wind_speed) + + if self.air_PM_concen is not None and not isinstance(self.air_PM_concen, str): + self.air_PM_concen = str(self.air_PM_concen) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.barometric_press is not None and not isinstance(self.barometric_press, str): + self.barometric_press = str(self.barometric_press) + + if self.carb_dioxide is not None and not isinstance(self.carb_dioxide, str): + self.carb_dioxide = str(self.carb_dioxide) + + if self.carb_monoxide is not None and not isinstance(self.carb_monoxide, str): + self.carb_monoxide = str(self.carb_monoxide) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.humidity is not None and not isinstance(self.humidity, str): + self.humidity = str(self.humidity) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.oxygen is not None and not isinstance(self.oxygen, str): + self.oxygen = str(self.oxygen) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.pollutants is not None and not isinstance(self.pollutants, str): + self.pollutants = str(self.pollutants) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.solar_irradiance is not None and not isinstance(self.solar_irradiance, str): + self.solar_irradiance = str(self.solar_irradiance) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.ventilation_rate is not None and not isinstance(self.ventilation_rate, str): + self.ventilation_rate = str(self.ventilation_rate) + + if self.ventilation_type is not None and not isinstance(self.ventilation_type, str): + self.ventilation_type = str(self.ventilation_type) + + if self.volatile_org_comp is not None and not isinstance(self.volatile_org_comp, str): + self.volatile_org_comp = str(self.volatile_org_comp) + + if self.wind_direction is not None and not isinstance(self.wind_direction, str): + self.wind_direction = str(self.wind_direction) + + if self.wind_speed is not None and not isinstance(self.wind_speed, str): + self.wind_speed = str(self.wind_speed) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class BiofilmInterface(DhInterface): + """ + biofilm dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.BiofilmInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:BiofilmInterface" + class_name: ClassVar[str] = "BiofilmInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.BiofilmInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alkalinity: Optional[str] = None + alkyl_diethers: Optional[str] = None + alt: Optional[str] = None + aminopept_act: Optional[str] = None + ammonium: Optional[str] = None + bacteria_carb_prod: Optional[str] = None + biomass: Optional[str] = None + bishomohopanol: Optional[str] = None + bromide: Optional[str] = None + calcium: Optional[str] = None + carb_nitro_ratio: Optional[str] = None + chem_administration: Optional[str] = None + chloride: Optional[str] = None + chlorophyll: Optional[str] = None + collection_date: Optional[str] = None + depth: Optional[str] = None + diether_lipids: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_hydrogen: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_org_carb: Optional[str] = None + diss_org_nitro: Optional[str] = None + diss_oxygen: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + geo_loc_name: Optional[str] = None + glucosidase_act: Optional[str] = None + horizon_meth: Optional[str] = None + lat_lon: Optional[str] = None + magnesium: Optional[str] = None + mean_frict_vel: Optional[str] = None + mean_peak_frict_vel: Optional[str] = None + methane: Optional[str] = None + misc_param: Optional[str] = None + n_alkanes: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + nitro: Optional[str] = None + org_carb: Optional[str] = None + org_matter: Optional[str] = None + org_nitro: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + part_org_carb: Optional[str] = None + perturbation: Optional[str] = None + petroleum_hydrocarb: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phaeopigments: Optional[str] = None + phosphate: Optional[str] = None + phosplipid_fatt_acid: Optional[str] = None + potassium: Optional[str] = None + pressure: Optional[str] = None + redox_potential: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + silicate: Optional[str] = None + size_frac: Optional[str] = None + sodium: Optional[str] = None + specific_ecosystem: Optional[str] = None + sulfate: Optional[str] = None + sulfide: Optional[str] = None + temp: Optional[str] = None + tot_carb: Optional[str] = None + tot_nitro_content: Optional[str] = None + tot_org_carb: Optional[str] = None + turbidity: Optional[str] = None + water_content: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, str): + self.carb_nitro_ratio = str(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, float): + self.carb_nitro_ratio = float(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class BuiltEnvInterface(DhInterface): + """ + built_env dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.BuiltEnvInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:BuiltEnvInterface" + class_name: ClassVar[str] = "BuiltEnvInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.BuiltEnvInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + abs_air_humidity: Optional[str] = None + address: Optional[str] = None + adj_room: Optional[str] = None + aero_struc: Optional[str] = None + air_temp: Optional[str] = None + alt: Optional[str] = None + amount_light: Optional[str] = None + arch_struc: Optional[Union[str, "ArchStrucEnum"]] = None + avg_dew_point: Optional[str] = None + avg_occup: Optional[str] = None + avg_temp: Optional[str] = None + bathroom_count: Optional[str] = None + bedroom_count: Optional[str] = None + build_docs: Optional[Union[str, "BuildDocsEnum"]] = None + build_occup_type: Optional[Union[Union[str, "BuildOccupTypeEnum"], List[Union[str, "BuildOccupTypeEnum"]]]] = empty_list() + building_setting: Optional[Union[str, "BuildingSettingEnum"]] = None + built_struc_age: Optional[str] = None + built_struc_set: Optional[str] = None + built_struc_type: Optional[str] = None + carb_dioxide: Optional[str] = None + ceil_area: Optional[str] = None + ceil_cond: Optional[Union[str, "CeilCondEnum"]] = None + ceil_finish_mat: Optional[Union[str, "CeilFinishMatEnum"]] = None + ceil_struc: Optional[str] = None + ceil_texture: Optional[Union[str, "CeilTextureEnum"]] = None + ceil_thermal_mass: Optional[str] = None + ceil_type: Optional[Union[str, "CeilTypeEnum"]] = None + ceil_water_mold: Optional[str] = None + collection_date: Optional[str] = None + cool_syst_id: Optional[str] = None + date_last_rain: Optional[str] = None + depth: Optional[str] = None + dew_point: Optional[str] = None + door_comp_type: Optional[Union[str, "DoorCompTypeEnum"]] = None + door_cond: Optional[Union[str, "DoorCondEnum"]] = None + door_direct: Optional[Union[str, "DoorDirectEnum"]] = None + door_loc: Optional[Union[str, "DoorLocEnum"]] = None + door_mat: Optional[Union[str, "DoorMatEnum"]] = None + door_move: Optional[Union[str, "DoorMoveEnum"]] = None + door_size: Optional[str] = None + door_type: Optional[Union[str, "DoorTypeEnum"]] = None + door_type_metal: Optional[Union[str, "DoorTypeMetalEnum"]] = None + door_type_wood: Optional[Union[str, "DoorTypeWoodEnum"]] = None + door_water_mold: Optional[str] = None + drawings: Optional[Union[str, "DrawingsEnum"]] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + elevator: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + escalator: Optional[str] = None + exp_duct: Optional[str] = None + exp_pipe: Optional[str] = None + experimental_factor: Optional[str] = None + ext_door: Optional[str] = None + ext_wall_orient: Optional[Union[str, "ExtWallOrientEnum"]] = None + ext_window_orient: Optional[Union[str, "ExtWindowOrientEnum"]] = None + filter_type: Optional[Union[Union[str, "FilterTypeEnum"], List[Union[str, "FilterTypeEnum"]]]] = empty_list() + fireplace_type: Optional[str] = None + floor_age: Optional[str] = None + floor_area: Optional[str] = None + floor_cond: Optional[Union[str, "FloorCondEnum"]] = None + floor_count: Optional[str] = None + floor_finish_mat: Optional[Union[str, "FloorFinishMatEnum"]] = None + floor_struc: Optional[Union[str, "FloorStrucEnum"]] = None + floor_thermal_mass: Optional[str] = None + floor_water_mold: Optional[Union[str, "FloorWaterMoldEnum"]] = None + freq_clean: Optional[str] = None + freq_cook: Optional[str] = None + furniture: Optional[Union[str, "FurnitureEnum"]] = None + gender_restroom: Optional[Union[str, "GenderRestroomEnum"]] = None + geo_loc_name: Optional[str] = None + hall_count: Optional[str] = None + handidness: Optional[Union[str, "HandidnessEnum"]] = None + heat_cool_type: Optional[Union[Union[str, "HeatCoolTypeEnum"], List[Union[str, "HeatCoolTypeEnum"]]]] = empty_list() + heat_deliv_loc: Optional[Union[str, "HeatDelivLocEnum"]] = None + heat_sys_deliv_meth: Optional[str] = None + heat_system_id: Optional[str] = None + height_carper_fiber: Optional[str] = None + horizon_meth: Optional[str] = None + indoor_space: Optional[Union[str, "IndoorSpaceEnum"]] = None + indoor_surf: Optional[Union[str, "IndoorSurfEnum"]] = None + inside_lux: Optional[str] = None + int_wall_cond: Optional[Union[str, "IntWallCondEnum"]] = None + last_clean: Optional[str] = None + lat_lon: Optional[str] = None + light_type: Optional[Union[Union[str, "LightTypeEnum"], List[Union[str, "LightTypeEnum"]]]] = empty_list() + max_occup: Optional[str] = None + mech_struc: Optional[Union[str, "MechStrucEnum"]] = None + number_pets: Optional[str] = None + number_plants: Optional[str] = None + number_resident: Optional[str] = None + occup_density_samp: Optional[str] = None + occup_document: Optional[Union[str, "OccupDocumentEnum"]] = None + occup_samp: Optional[str] = None + organism_count: Optional[str] = None + pres_animal_insect: Optional[str] = None + quad_pos: Optional[Union[str, "QuadPosEnum"]] = None + rel_air_humidity: Optional[str] = None + rel_humidity_out: Optional[str] = None + rel_samp_loc: Optional[Union[str, "RelSampLocEnum"]] = None + room_air_exch_rate: Optional[str] = None + room_architec_elem: Optional[str] = None + room_condt: Optional[Union[str, "RoomCondtEnum"]] = None + room_connected: Optional[Union[str, "RoomConnectedEnum"]] = None + room_count: Optional[str] = None + room_dim: Optional[str] = None + room_door_dist: Optional[str] = None + room_door_share: Optional[str] = None + room_hallway: Optional[str] = None + room_loc: Optional[Union[str, "RoomLocEnum"]] = None + room_moist_dam_hist: Optional[int] = None + room_net_area: Optional[str] = None + room_occup: Optional[str] = None + room_samp_pos: Optional[Union[str, "RoomSampPosEnum"]] = None + room_type: Optional[Union[str, "RoomTypeEnum"]] = None + room_vol: Optional[str] = None + room_wall_share: Optional[str] = None + room_window_count: Optional[int] = None + samp_floor: Optional[Union[str, "SampFloorEnum"]] = None + samp_room_id: Optional[str] = None + samp_sort_meth: Optional[str] = None + samp_time_out: Optional[str] = None + samp_weather: Optional[Union[str, "SampWeatherEnum"]] = None + sample_link: Optional[str] = None + season: Optional[str] = None + season_use: Optional[Union[str, "SeasonUseEnum"]] = None + shad_dev_water_mold: Optional[str] = None + shading_device_cond: Optional[Union[str, "ShadingDeviceCondEnum"]] = None + shading_device_loc: Optional[str] = None + shading_device_mat: Optional[str] = None + shading_device_type: Optional[Union[str, "ShadingDeviceTypeEnum"]] = None + size_frac: Optional[str] = None + space_typ_state: Optional[str] = None + specific: Optional[Union[str, "SpecificEnum"]] = None + specific_ecosystem: Optional[str] = None + specific_humidity: Optional[str] = None + substructure_type: Optional[Union[Union[str, "SubstructureTypeEnum"], List[Union[str, "SubstructureTypeEnum"]]]] = empty_list() + surf_air_cont: Optional[Union[Union[str, "SurfAirContEnum"], List[Union[str, "SurfAirContEnum"]]]] = empty_list() + surf_humidity: Optional[str] = None + surf_material: Optional[Union[str, "SurfMaterialEnum"]] = None + surf_moisture: Optional[str] = None + surf_moisture_ph: Optional[float] = None + surf_temp: Optional[str] = None + temp: Optional[str] = None + temp_out: Optional[str] = None + train_line: Optional[Union[str, "TrainLineEnum"]] = None + train_stat_loc: Optional[Union[str, "TrainStatLocEnum"]] = None + train_stop_loc: Optional[Union[str, "TrainStopLocEnum"]] = None + typ_occup_density: Optional[float] = None + ventilation_type: Optional[str] = None + vis_media: Optional[Union[str, "VisMediaEnum"]] = None + wall_area: Optional[str] = None + wall_const_type: Optional[Union[str, "WallConstTypeEnum"]] = None + wall_finish_mat: Optional[Union[str, "WallFinishMatEnum"]] = None + wall_height: Optional[str] = None + wall_loc: Optional[Union[str, "WallLocEnum"]] = None + wall_surf_treatment: Optional[Union[str, "WallSurfTreatmentEnum"]] = None + wall_texture: Optional[Union[str, "WallTextureEnum"]] = None + wall_thermal_mass: Optional[str] = None + wall_water_mold: Optional[str] = None + water_feat_size: Optional[str] = None + water_feat_type: Optional[Union[str, "WaterFeatTypeEnum"]] = None + weekday: Optional[Union[str, "WeekdayEnum"]] = None + window_cond: Optional[Union[str, "WindowCondEnum"]] = None + window_cover: Optional[Union[str, "WindowCoverEnum"]] = None + window_horiz_pos: Optional[Union[str, "WindowHorizPosEnum"]] = None + window_loc: Optional[Union[str, "WindowLocEnum"]] = None + window_mat: Optional[Union[str, "WindowMatEnum"]] = None + window_open_freq: Optional[str] = None + window_size: Optional[str] = None + window_status: Optional[str] = None + window_type: Optional[Union[str, "WindowTypeEnum"]] = None + window_vert_pos: Optional[Union[str, "WindowVertPosEnum"]] = None + window_water_mold: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.abs_air_humidity is not None and not isinstance(self.abs_air_humidity, str): + self.abs_air_humidity = str(self.abs_air_humidity) + + if self.address is not None and not isinstance(self.address, str): + self.address = str(self.address) + + if self.adj_room is not None and not isinstance(self.adj_room, str): + self.adj_room = str(self.adj_room) + + if self.aero_struc is not None and not isinstance(self.aero_struc, str): + self.aero_struc = str(self.aero_struc) + + if self.air_temp is not None and not isinstance(self.air_temp, str): + self.air_temp = str(self.air_temp) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.amount_light is not None and not isinstance(self.amount_light, str): + self.amount_light = str(self.amount_light) + + if self.arch_struc is not None and not isinstance(self.arch_struc, ArchStrucEnum): + self.arch_struc = ArchStrucEnum(self.arch_struc) + + if self.avg_dew_point is not None and not isinstance(self.avg_dew_point, str): + self.avg_dew_point = str(self.avg_dew_point) + + if self.avg_occup is not None and not isinstance(self.avg_occup, str): + self.avg_occup = str(self.avg_occup) + + if self.avg_temp is not None and not isinstance(self.avg_temp, str): + self.avg_temp = str(self.avg_temp) + + if self.bathroom_count is not None and not isinstance(self.bathroom_count, str): + self.bathroom_count = str(self.bathroom_count) + + if self.bedroom_count is not None and not isinstance(self.bedroom_count, str): + self.bedroom_count = str(self.bedroom_count) + + if self.build_docs is not None and not isinstance(self.build_docs, BuildDocsEnum): + self.build_docs = BuildDocsEnum(self.build_docs) + + if not isinstance(self.build_occup_type, list): + self.build_occup_type = [self.build_occup_type] if self.build_occup_type is not None else [] + self.build_occup_type = [v if isinstance(v, BuildOccupTypeEnum) else BuildOccupTypeEnum(v) for v in self.build_occup_type] + + if self.building_setting is not None and not isinstance(self.building_setting, BuildingSettingEnum): + self.building_setting = BuildingSettingEnum(self.building_setting) + + if self.built_struc_age is not None and not isinstance(self.built_struc_age, str): + self.built_struc_age = str(self.built_struc_age) + + if self.built_struc_set is not None and not isinstance(self.built_struc_set, str): + self.built_struc_set = str(self.built_struc_set) + + if self.built_struc_type is not None and not isinstance(self.built_struc_type, str): + self.built_struc_type = str(self.built_struc_type) + + if self.carb_dioxide is not None and not isinstance(self.carb_dioxide, str): + self.carb_dioxide = str(self.carb_dioxide) + + if self.ceil_area is not None and not isinstance(self.ceil_area, str): + self.ceil_area = str(self.ceil_area) + + if self.ceil_cond is not None and not isinstance(self.ceil_cond, CeilCondEnum): + self.ceil_cond = CeilCondEnum(self.ceil_cond) + + if self.ceil_finish_mat is not None and not isinstance(self.ceil_finish_mat, CeilFinishMatEnum): + self.ceil_finish_mat = CeilFinishMatEnum(self.ceil_finish_mat) + + if self.ceil_struc is not None and not isinstance(self.ceil_struc, str): + self.ceil_struc = str(self.ceil_struc) + + if self.ceil_texture is not None and not isinstance(self.ceil_texture, CeilTextureEnum): + self.ceil_texture = CeilTextureEnum(self.ceil_texture) + + if self.ceil_thermal_mass is not None and not isinstance(self.ceil_thermal_mass, str): + self.ceil_thermal_mass = str(self.ceil_thermal_mass) + + if self.ceil_type is not None and not isinstance(self.ceil_type, CeilTypeEnum): + self.ceil_type = CeilTypeEnum(self.ceil_type) + + if self.ceil_water_mold is not None and not isinstance(self.ceil_water_mold, str): + self.ceil_water_mold = str(self.ceil_water_mold) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.cool_syst_id is not None and not isinstance(self.cool_syst_id, str): + self.cool_syst_id = str(self.cool_syst_id) + + if self.date_last_rain is not None and not isinstance(self.date_last_rain, str): + self.date_last_rain = str(self.date_last_rain) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.dew_point is not None and not isinstance(self.dew_point, str): + self.dew_point = str(self.dew_point) + + if self.door_comp_type is not None and not isinstance(self.door_comp_type, DoorCompTypeEnum): + self.door_comp_type = DoorCompTypeEnum(self.door_comp_type) + + if self.door_cond is not None and not isinstance(self.door_cond, DoorCondEnum): + self.door_cond = DoorCondEnum(self.door_cond) + + if self.door_direct is not None and not isinstance(self.door_direct, DoorDirectEnum): + self.door_direct = DoorDirectEnum(self.door_direct) + + if self.door_loc is not None and not isinstance(self.door_loc, DoorLocEnum): + self.door_loc = DoorLocEnum(self.door_loc) + + if self.door_mat is not None and not isinstance(self.door_mat, DoorMatEnum): + self.door_mat = DoorMatEnum(self.door_mat) + + if self.door_move is not None and not isinstance(self.door_move, DoorMoveEnum): + self.door_move = DoorMoveEnum(self.door_move) + + if self.door_size is not None and not isinstance(self.door_size, str): + self.door_size = str(self.door_size) + + if self.door_type is not None and not isinstance(self.door_type, DoorTypeEnum): + self.door_type = DoorTypeEnum(self.door_type) + + if self.door_type_metal is not None and not isinstance(self.door_type_metal, DoorTypeMetalEnum): + self.door_type_metal = DoorTypeMetalEnum(self.door_type_metal) + + if self.door_type_wood is not None and not isinstance(self.door_type_wood, DoorTypeWoodEnum): + self.door_type_wood = DoorTypeWoodEnum(self.door_type_wood) + + if self.door_water_mold is not None and not isinstance(self.door_water_mold, str): + self.door_water_mold = str(self.door_water_mold) + + if self.drawings is not None and not isinstance(self.drawings, DrawingsEnum): + self.drawings = DrawingsEnum(self.drawings) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.elevator is not None and not isinstance(self.elevator, str): + self.elevator = str(self.elevator) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.escalator is not None and not isinstance(self.escalator, str): + self.escalator = str(self.escalator) + + if self.exp_duct is not None and not isinstance(self.exp_duct, str): + self.exp_duct = str(self.exp_duct) + + if self.exp_pipe is not None and not isinstance(self.exp_pipe, str): + self.exp_pipe = str(self.exp_pipe) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.ext_door is not None and not isinstance(self.ext_door, str): + self.ext_door = str(self.ext_door) + + if self.ext_wall_orient is not None and not isinstance(self.ext_wall_orient, ExtWallOrientEnum): + self.ext_wall_orient = ExtWallOrientEnum(self.ext_wall_orient) + + if self.ext_window_orient is not None and not isinstance(self.ext_window_orient, ExtWindowOrientEnum): + self.ext_window_orient = ExtWindowOrientEnum(self.ext_window_orient) + + if not isinstance(self.filter_type, list): + self.filter_type = [self.filter_type] if self.filter_type is not None else [] + self.filter_type = [v if isinstance(v, FilterTypeEnum) else FilterTypeEnum(v) for v in self.filter_type] + + if self.fireplace_type is not None and not isinstance(self.fireplace_type, str): + self.fireplace_type = str(self.fireplace_type) + + if self.floor_age is not None and not isinstance(self.floor_age, str): + self.floor_age = str(self.floor_age) + + if self.floor_area is not None and not isinstance(self.floor_area, str): + self.floor_area = str(self.floor_area) + + if self.floor_cond is not None and not isinstance(self.floor_cond, FloorCondEnum): + self.floor_cond = FloorCondEnum(self.floor_cond) + + if self.floor_count is not None and not isinstance(self.floor_count, str): + self.floor_count = str(self.floor_count) + + if self.floor_finish_mat is not None and not isinstance(self.floor_finish_mat, FloorFinishMatEnum): + self.floor_finish_mat = FloorFinishMatEnum(self.floor_finish_mat) + + if self.floor_struc is not None and not isinstance(self.floor_struc, FloorStrucEnum): + self.floor_struc = FloorStrucEnum(self.floor_struc) + + if self.floor_thermal_mass is not None and not isinstance(self.floor_thermal_mass, str): + self.floor_thermal_mass = str(self.floor_thermal_mass) + + if self.floor_water_mold is not None and not isinstance(self.floor_water_mold, FloorWaterMoldEnum): + self.floor_water_mold = FloorWaterMoldEnum(self.floor_water_mold) + + if self.freq_clean is not None and not isinstance(self.freq_clean, str): + self.freq_clean = str(self.freq_clean) + + if self.freq_cook is not None and not isinstance(self.freq_cook, str): + self.freq_cook = str(self.freq_cook) + + if self.furniture is not None and not isinstance(self.furniture, FurnitureEnum): + self.furniture = FurnitureEnum(self.furniture) + + if self.gender_restroom is not None and not isinstance(self.gender_restroom, GenderRestroomEnum): + self.gender_restroom = GenderRestroomEnum(self.gender_restroom) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.hall_count is not None and not isinstance(self.hall_count, str): + self.hall_count = str(self.hall_count) + + if self.handidness is not None and not isinstance(self.handidness, HandidnessEnum): + self.handidness = HandidnessEnum(self.handidness) + + if not isinstance(self.heat_cool_type, list): + self.heat_cool_type = [self.heat_cool_type] if self.heat_cool_type is not None else [] + self.heat_cool_type = [v if isinstance(v, HeatCoolTypeEnum) else HeatCoolTypeEnum(v) for v in self.heat_cool_type] + + if self.heat_deliv_loc is not None and not isinstance(self.heat_deliv_loc, HeatDelivLocEnum): + self.heat_deliv_loc = HeatDelivLocEnum(self.heat_deliv_loc) + + if self.heat_sys_deliv_meth is not None and not isinstance(self.heat_sys_deliv_meth, str): + self.heat_sys_deliv_meth = str(self.heat_sys_deliv_meth) + + if self.heat_system_id is not None and not isinstance(self.heat_system_id, str): + self.heat_system_id = str(self.heat_system_id) + + if self.height_carper_fiber is not None and not isinstance(self.height_carper_fiber, str): + self.height_carper_fiber = str(self.height_carper_fiber) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.indoor_space is not None and not isinstance(self.indoor_space, IndoorSpaceEnum): + self.indoor_space = IndoorSpaceEnum(self.indoor_space) + + if self.indoor_surf is not None and not isinstance(self.indoor_surf, IndoorSurfEnum): + self.indoor_surf = IndoorSurfEnum(self.indoor_surf) + + if self.inside_lux is not None and not isinstance(self.inside_lux, str): + self.inside_lux = str(self.inside_lux) + + if self.int_wall_cond is not None and not isinstance(self.int_wall_cond, IntWallCondEnum): + self.int_wall_cond = IntWallCondEnum(self.int_wall_cond) + + if self.last_clean is not None and not isinstance(self.last_clean, str): + self.last_clean = str(self.last_clean) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if not isinstance(self.light_type, list): + self.light_type = [self.light_type] if self.light_type is not None else [] + self.light_type = [v if isinstance(v, LightTypeEnum) else LightTypeEnum(v) for v in self.light_type] + + if self.max_occup is not None and not isinstance(self.max_occup, str): + self.max_occup = str(self.max_occup) + + if self.mech_struc is not None and not isinstance(self.mech_struc, MechStrucEnum): + self.mech_struc = MechStrucEnum(self.mech_struc) + + if self.number_pets is not None and not isinstance(self.number_pets, str): + self.number_pets = str(self.number_pets) + + if self.number_plants is not None and not isinstance(self.number_plants, str): + self.number_plants = str(self.number_plants) + + if self.number_resident is not None and not isinstance(self.number_resident, str): + self.number_resident = str(self.number_resident) + + if self.occup_density_samp is not None and not isinstance(self.occup_density_samp, str): + self.occup_density_samp = str(self.occup_density_samp) + + if self.occup_document is not None and not isinstance(self.occup_document, OccupDocumentEnum): + self.occup_document = OccupDocumentEnum(self.occup_document) + + if self.occup_samp is not None and not isinstance(self.occup_samp, str): + self.occup_samp = str(self.occup_samp) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.pres_animal_insect is not None and not isinstance(self.pres_animal_insect, str): + self.pres_animal_insect = str(self.pres_animal_insect) + + if self.quad_pos is not None and not isinstance(self.quad_pos, QuadPosEnum): + self.quad_pos = QuadPosEnum(self.quad_pos) + + if self.rel_air_humidity is not None and not isinstance(self.rel_air_humidity, str): + self.rel_air_humidity = str(self.rel_air_humidity) + + if self.rel_humidity_out is not None and not isinstance(self.rel_humidity_out, str): + self.rel_humidity_out = str(self.rel_humidity_out) + + if self.rel_samp_loc is not None and not isinstance(self.rel_samp_loc, RelSampLocEnum): + self.rel_samp_loc = RelSampLocEnum(self.rel_samp_loc) + + if self.room_air_exch_rate is not None and not isinstance(self.room_air_exch_rate, str): + self.room_air_exch_rate = str(self.room_air_exch_rate) + + if self.room_architec_elem is not None and not isinstance(self.room_architec_elem, str): + self.room_architec_elem = str(self.room_architec_elem) + + if self.room_condt is not None and not isinstance(self.room_condt, RoomCondtEnum): + self.room_condt = RoomCondtEnum(self.room_condt) + + if self.room_connected is not None and not isinstance(self.room_connected, RoomConnectedEnum): + self.room_connected = RoomConnectedEnum(self.room_connected) + + if self.room_count is not None and not isinstance(self.room_count, str): + self.room_count = str(self.room_count) + + if self.room_dim is not None and not isinstance(self.room_dim, str): + self.room_dim = str(self.room_dim) + + if self.room_door_dist is not None and not isinstance(self.room_door_dist, str): + self.room_door_dist = str(self.room_door_dist) + + if self.room_door_share is not None and not isinstance(self.room_door_share, str): + self.room_door_share = str(self.room_door_share) + + if self.room_hallway is not None and not isinstance(self.room_hallway, str): + self.room_hallway = str(self.room_hallway) + + if self.room_loc is not None and not isinstance(self.room_loc, RoomLocEnum): + self.room_loc = RoomLocEnum(self.room_loc) + + if self.room_moist_dam_hist is not None and not isinstance(self.room_moist_dam_hist, int): + self.room_moist_dam_hist = int(self.room_moist_dam_hist) + + if self.room_net_area is not None and not isinstance(self.room_net_area, str): + self.room_net_area = str(self.room_net_area) + + if self.room_occup is not None and not isinstance(self.room_occup, str): + self.room_occup = str(self.room_occup) + + if self.room_samp_pos is not None and not isinstance(self.room_samp_pos, RoomSampPosEnum): + self.room_samp_pos = RoomSampPosEnum(self.room_samp_pos) + + if self.room_type is not None and not isinstance(self.room_type, RoomTypeEnum): + self.room_type = RoomTypeEnum(self.room_type) + + if self.room_vol is not None and not isinstance(self.room_vol, str): + self.room_vol = str(self.room_vol) + + if self.room_wall_share is not None and not isinstance(self.room_wall_share, str): + self.room_wall_share = str(self.room_wall_share) + + if self.room_window_count is not None and not isinstance(self.room_window_count, int): + self.room_window_count = int(self.room_window_count) + + if self.samp_floor is not None and not isinstance(self.samp_floor, SampFloorEnum): + self.samp_floor = SampFloorEnum(self.samp_floor) + + if self.samp_room_id is not None and not isinstance(self.samp_room_id, str): + self.samp_room_id = str(self.samp_room_id) + + if self.samp_sort_meth is not None and not isinstance(self.samp_sort_meth, str): + self.samp_sort_meth = str(self.samp_sort_meth) + + if self.samp_time_out is not None and not isinstance(self.samp_time_out, str): + self.samp_time_out = str(self.samp_time_out) + + if self.samp_weather is not None and not isinstance(self.samp_weather, SampWeatherEnum): + self.samp_weather = SampWeatherEnum(self.samp_weather) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.season is not None and not isinstance(self.season, str): + self.season = str(self.season) + + if self.season_use is not None and not isinstance(self.season_use, SeasonUseEnum): + self.season_use = SeasonUseEnum(self.season_use) + + if self.shad_dev_water_mold is not None and not isinstance(self.shad_dev_water_mold, str): + self.shad_dev_water_mold = str(self.shad_dev_water_mold) + + if self.shading_device_cond is not None and not isinstance(self.shading_device_cond, ShadingDeviceCondEnum): + self.shading_device_cond = ShadingDeviceCondEnum(self.shading_device_cond) + + if self.shading_device_loc is not None and not isinstance(self.shading_device_loc, str): + self.shading_device_loc = str(self.shading_device_loc) + + if self.shading_device_mat is not None and not isinstance(self.shading_device_mat, str): + self.shading_device_mat = str(self.shading_device_mat) + + if self.shading_device_type is not None and not isinstance(self.shading_device_type, ShadingDeviceTypeEnum): + self.shading_device_type = ShadingDeviceTypeEnum(self.shading_device_type) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.space_typ_state is not None and not isinstance(self.space_typ_state, str): + self.space_typ_state = str(self.space_typ_state) + + if self.specific is not None and not isinstance(self.specific, SpecificEnum): + self.specific = SpecificEnum(self.specific) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.specific_humidity is not None and not isinstance(self.specific_humidity, str): + self.specific_humidity = str(self.specific_humidity) + + if not isinstance(self.substructure_type, list): + self.substructure_type = [self.substructure_type] if self.substructure_type is not None else [] + self.substructure_type = [v if isinstance(v, SubstructureTypeEnum) else SubstructureTypeEnum(v) for v in self.substructure_type] + + if not isinstance(self.surf_air_cont, list): + self.surf_air_cont = [self.surf_air_cont] if self.surf_air_cont is not None else [] + self.surf_air_cont = [v if isinstance(v, SurfAirContEnum) else SurfAirContEnum(v) for v in self.surf_air_cont] + + if self.surf_humidity is not None and not isinstance(self.surf_humidity, str): + self.surf_humidity = str(self.surf_humidity) + + if self.surf_material is not None and not isinstance(self.surf_material, SurfMaterialEnum): + self.surf_material = SurfMaterialEnum(self.surf_material) + + if self.surf_moisture is not None and not isinstance(self.surf_moisture, str): + self.surf_moisture = str(self.surf_moisture) + + if self.surf_moisture_ph is not None and not isinstance(self.surf_moisture_ph, float): + self.surf_moisture_ph = float(self.surf_moisture_ph) + + if self.surf_temp is not None and not isinstance(self.surf_temp, str): + self.surf_temp = str(self.surf_temp) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.temp_out is not None and not isinstance(self.temp_out, str): + self.temp_out = str(self.temp_out) + + if self.train_line is not None and not isinstance(self.train_line, TrainLineEnum): + self.train_line = TrainLineEnum(self.train_line) + + if self.train_stat_loc is not None and not isinstance(self.train_stat_loc, TrainStatLocEnum): + self.train_stat_loc = TrainStatLocEnum(self.train_stat_loc) + + if self.train_stop_loc is not None and not isinstance(self.train_stop_loc, TrainStopLocEnum): + self.train_stop_loc = TrainStopLocEnum(self.train_stop_loc) + + if self.typ_occup_density is not None and not isinstance(self.typ_occup_density, float): + self.typ_occup_density = float(self.typ_occup_density) + + if self.ventilation_type is not None and not isinstance(self.ventilation_type, str): + self.ventilation_type = str(self.ventilation_type) + + if self.vis_media is not None and not isinstance(self.vis_media, VisMediaEnum): + self.vis_media = VisMediaEnum(self.vis_media) + + if self.wall_area is not None and not isinstance(self.wall_area, str): + self.wall_area = str(self.wall_area) + + if self.wall_const_type is not None and not isinstance(self.wall_const_type, WallConstTypeEnum): + self.wall_const_type = WallConstTypeEnum(self.wall_const_type) + + if self.wall_finish_mat is not None and not isinstance(self.wall_finish_mat, WallFinishMatEnum): + self.wall_finish_mat = WallFinishMatEnum(self.wall_finish_mat) + + if self.wall_height is not None and not isinstance(self.wall_height, str): + self.wall_height = str(self.wall_height) + + if self.wall_loc is not None and not isinstance(self.wall_loc, WallLocEnum): + self.wall_loc = WallLocEnum(self.wall_loc) + + if self.wall_surf_treatment is not None and not isinstance(self.wall_surf_treatment, WallSurfTreatmentEnum): + self.wall_surf_treatment = WallSurfTreatmentEnum(self.wall_surf_treatment) + + if self.wall_texture is not None and not isinstance(self.wall_texture, WallTextureEnum): + self.wall_texture = WallTextureEnum(self.wall_texture) + + if self.wall_thermal_mass is not None and not isinstance(self.wall_thermal_mass, str): + self.wall_thermal_mass = str(self.wall_thermal_mass) + + if self.wall_water_mold is not None and not isinstance(self.wall_water_mold, str): + self.wall_water_mold = str(self.wall_water_mold) + + if self.water_feat_size is not None and not isinstance(self.water_feat_size, str): + self.water_feat_size = str(self.water_feat_size) + + if self.water_feat_type is not None and not isinstance(self.water_feat_type, WaterFeatTypeEnum): + self.water_feat_type = WaterFeatTypeEnum(self.water_feat_type) + + if self.weekday is not None and not isinstance(self.weekday, WeekdayEnum): + self.weekday = WeekdayEnum(self.weekday) + + if self.window_cond is not None and not isinstance(self.window_cond, WindowCondEnum): + self.window_cond = WindowCondEnum(self.window_cond) + + if self.window_cover is not None and not isinstance(self.window_cover, WindowCoverEnum): + self.window_cover = WindowCoverEnum(self.window_cover) + + if self.window_horiz_pos is not None and not isinstance(self.window_horiz_pos, WindowHorizPosEnum): + self.window_horiz_pos = WindowHorizPosEnum(self.window_horiz_pos) + + if self.window_loc is not None and not isinstance(self.window_loc, WindowLocEnum): + self.window_loc = WindowLocEnum(self.window_loc) + + if self.window_mat is not None and not isinstance(self.window_mat, WindowMatEnum): + self.window_mat = WindowMatEnum(self.window_mat) + + if self.window_open_freq is not None and not isinstance(self.window_open_freq, str): + self.window_open_freq = str(self.window_open_freq) + + if self.window_size is not None and not isinstance(self.window_size, str): + self.window_size = str(self.window_size) + + if self.window_status is not None and not isinstance(self.window_status, str): + self.window_status = str(self.window_status) + + if self.window_type is not None and not isinstance(self.window_type, WindowTypeEnum): + self.window_type = WindowTypeEnum(self.window_type) + + if self.window_vert_pos is not None and not isinstance(self.window_vert_pos, WindowVertPosEnum): + self.window_vert_pos = WindowVertPosEnum(self.window_vert_pos) + + if self.window_water_mold is not None and not isinstance(self.window_water_mold, str): + self.window_water_mold = str(self.window_water_mold) + + if self.abs_air_humidity is not None and not isinstance(self.abs_air_humidity, str): + self.abs_air_humidity = str(self.abs_air_humidity) + + if self.address is not None and not isinstance(self.address, str): + self.address = str(self.address) + + if self.adj_room is not None and not isinstance(self.adj_room, str): + self.adj_room = str(self.adj_room) + + if self.aero_struc is not None and not isinstance(self.aero_struc, str): + self.aero_struc = str(self.aero_struc) + + if self.air_temp is not None and not isinstance(self.air_temp, str): + self.air_temp = str(self.air_temp) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.amount_light is not None and not isinstance(self.amount_light, str): + self.amount_light = str(self.amount_light) + + if self.arch_struc is not None and not isinstance(self.arch_struc, ArchStrucEnum): + self.arch_struc = ArchStrucEnum(self.arch_struc) + + if self.avg_dew_point is not None and not isinstance(self.avg_dew_point, str): + self.avg_dew_point = str(self.avg_dew_point) + + if self.avg_occup is not None and not isinstance(self.avg_occup, str): + self.avg_occup = str(self.avg_occup) + + if self.avg_temp is not None and not isinstance(self.avg_temp, str): + self.avg_temp = str(self.avg_temp) + + if self.bathroom_count is not None and not isinstance(self.bathroom_count, str): + self.bathroom_count = str(self.bathroom_count) + + if self.bedroom_count is not None and not isinstance(self.bedroom_count, str): + self.bedroom_count = str(self.bedroom_count) + + if self.build_docs is not None and not isinstance(self.build_docs, BuildDocsEnum): + self.build_docs = BuildDocsEnum(self.build_docs) + + if not isinstance(self.build_occup_type, list): + self.build_occup_type = [self.build_occup_type] if self.build_occup_type is not None else [] + self.build_occup_type = [v if isinstance(v, BuildOccupTypeEnum) else BuildOccupTypeEnum(v) for v in self.build_occup_type] + + if self.building_setting is not None and not isinstance(self.building_setting, BuildingSettingEnum): + self.building_setting = BuildingSettingEnum(self.building_setting) + + if self.built_struc_age is not None and not isinstance(self.built_struc_age, str): + self.built_struc_age = str(self.built_struc_age) + + if self.built_struc_set is not None and not isinstance(self.built_struc_set, str): + self.built_struc_set = str(self.built_struc_set) + + if self.built_struc_type is not None and not isinstance(self.built_struc_type, str): + self.built_struc_type = str(self.built_struc_type) + + if self.carb_dioxide is not None and not isinstance(self.carb_dioxide, str): + self.carb_dioxide = str(self.carb_dioxide) + + if self.ceil_area is not None and not isinstance(self.ceil_area, str): + self.ceil_area = str(self.ceil_area) + + if self.ceil_cond is not None and not isinstance(self.ceil_cond, CeilCondEnum): + self.ceil_cond = CeilCondEnum(self.ceil_cond) + + if self.ceil_finish_mat is not None and not isinstance(self.ceil_finish_mat, CeilFinishMatEnum): + self.ceil_finish_mat = CeilFinishMatEnum(self.ceil_finish_mat) + + if self.ceil_struc is not None and not isinstance(self.ceil_struc, str): + self.ceil_struc = str(self.ceil_struc) + + if self.ceil_texture is not None and not isinstance(self.ceil_texture, CeilTextureEnum): + self.ceil_texture = CeilTextureEnum(self.ceil_texture) + + if self.ceil_thermal_mass is not None and not isinstance(self.ceil_thermal_mass, str): + self.ceil_thermal_mass = str(self.ceil_thermal_mass) + + if self.ceil_type is not None and not isinstance(self.ceil_type, CeilTypeEnum): + self.ceil_type = CeilTypeEnum(self.ceil_type) + + if self.ceil_water_mold is not None and not isinstance(self.ceil_water_mold, str): + self.ceil_water_mold = str(self.ceil_water_mold) + + if self.cool_syst_id is not None and not isinstance(self.cool_syst_id, str): + self.cool_syst_id = str(self.cool_syst_id) + + if self.date_last_rain is not None and not isinstance(self.date_last_rain, str): + self.date_last_rain = str(self.date_last_rain) + + if self.dew_point is not None and not isinstance(self.dew_point, str): + self.dew_point = str(self.dew_point) + + if self.door_comp_type is not None and not isinstance(self.door_comp_type, DoorCompTypeEnum): + self.door_comp_type = DoorCompTypeEnum(self.door_comp_type) + + if self.door_cond is not None and not isinstance(self.door_cond, DoorCondEnum): + self.door_cond = DoorCondEnum(self.door_cond) + + if self.door_direct is not None and not isinstance(self.door_direct, DoorDirectEnum): + self.door_direct = DoorDirectEnum(self.door_direct) + + if self.door_loc is not None and not isinstance(self.door_loc, DoorLocEnum): + self.door_loc = DoorLocEnum(self.door_loc) + + if self.door_mat is not None and not isinstance(self.door_mat, DoorMatEnum): + self.door_mat = DoorMatEnum(self.door_mat) + + if self.door_move is not None and not isinstance(self.door_move, DoorMoveEnum): + self.door_move = DoorMoveEnum(self.door_move) + + if self.door_size is not None and not isinstance(self.door_size, str): + self.door_size = str(self.door_size) + + if self.door_type is not None and not isinstance(self.door_type, DoorTypeEnum): + self.door_type = DoorTypeEnum(self.door_type) + + if self.door_type_metal is not None and not isinstance(self.door_type_metal, DoorTypeMetalEnum): + self.door_type_metal = DoorTypeMetalEnum(self.door_type_metal) + + if self.door_type_wood is not None and not isinstance(self.door_type_wood, DoorTypeWoodEnum): + self.door_type_wood = DoorTypeWoodEnum(self.door_type_wood) + + if self.door_water_mold is not None and not isinstance(self.door_water_mold, str): + self.door_water_mold = str(self.door_water_mold) + + if self.drawings is not None and not isinstance(self.drawings, DrawingsEnum): + self.drawings = DrawingsEnum(self.drawings) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elevator is not None and not isinstance(self.elevator, str): + self.elevator = str(self.elevator) + + if self.escalator is not None and not isinstance(self.escalator, str): + self.escalator = str(self.escalator) + + if self.exp_duct is not None and not isinstance(self.exp_duct, str): + self.exp_duct = str(self.exp_duct) + + if self.exp_pipe is not None and not isinstance(self.exp_pipe, str): + self.exp_pipe = str(self.exp_pipe) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.ext_door is not None and not isinstance(self.ext_door, str): + self.ext_door = str(self.ext_door) + + if self.ext_wall_orient is not None and not isinstance(self.ext_wall_orient, ExtWallOrientEnum): + self.ext_wall_orient = ExtWallOrientEnum(self.ext_wall_orient) + + if self.ext_window_orient is not None and not isinstance(self.ext_window_orient, ExtWindowOrientEnum): + self.ext_window_orient = ExtWindowOrientEnum(self.ext_window_orient) + + if not isinstance(self.filter_type, list): + self.filter_type = [self.filter_type] if self.filter_type is not None else [] + self.filter_type = [v if isinstance(v, FilterTypeEnum) else FilterTypeEnum(v) for v in self.filter_type] + + if self.fireplace_type is not None and not isinstance(self.fireplace_type, str): + self.fireplace_type = str(self.fireplace_type) + + if self.floor_age is not None and not isinstance(self.floor_age, str): + self.floor_age = str(self.floor_age) + + if self.floor_area is not None and not isinstance(self.floor_area, str): + self.floor_area = str(self.floor_area) + + if self.floor_cond is not None and not isinstance(self.floor_cond, FloorCondEnum): + self.floor_cond = FloorCondEnum(self.floor_cond) + + if self.floor_count is not None and not isinstance(self.floor_count, str): + self.floor_count = str(self.floor_count) + + if self.floor_finish_mat is not None and not isinstance(self.floor_finish_mat, FloorFinishMatEnum): + self.floor_finish_mat = FloorFinishMatEnum(self.floor_finish_mat) + + if self.floor_struc is not None and not isinstance(self.floor_struc, FloorStrucEnum): + self.floor_struc = FloorStrucEnum(self.floor_struc) + + if self.floor_thermal_mass is not None and not isinstance(self.floor_thermal_mass, str): + self.floor_thermal_mass = str(self.floor_thermal_mass) + + if self.floor_water_mold is not None and not isinstance(self.floor_water_mold, FloorWaterMoldEnum): + self.floor_water_mold = FloorWaterMoldEnum(self.floor_water_mold) + + if self.freq_clean is not None and not isinstance(self.freq_clean, str): + self.freq_clean = str(self.freq_clean) + + if self.freq_cook is not None and not isinstance(self.freq_cook, str): + self.freq_cook = str(self.freq_cook) + + if self.furniture is not None and not isinstance(self.furniture, FurnitureEnum): + self.furniture = FurnitureEnum(self.furniture) + + if self.gender_restroom is not None and not isinstance(self.gender_restroom, GenderRestroomEnum): + self.gender_restroom = GenderRestroomEnum(self.gender_restroom) + + if self.hall_count is not None and not isinstance(self.hall_count, str): + self.hall_count = str(self.hall_count) + + if self.handidness is not None and not isinstance(self.handidness, HandidnessEnum): + self.handidness = HandidnessEnum(self.handidness) + + if not isinstance(self.heat_cool_type, list): + self.heat_cool_type = [self.heat_cool_type] if self.heat_cool_type is not None else [] + self.heat_cool_type = [v if isinstance(v, HeatCoolTypeEnum) else HeatCoolTypeEnum(v) for v in self.heat_cool_type] + + if self.heat_deliv_loc is not None and not isinstance(self.heat_deliv_loc, HeatDelivLocEnum): + self.heat_deliv_loc = HeatDelivLocEnum(self.heat_deliv_loc) + + if self.heat_sys_deliv_meth is not None and not isinstance(self.heat_sys_deliv_meth, str): + self.heat_sys_deliv_meth = str(self.heat_sys_deliv_meth) + + if self.heat_system_id is not None and not isinstance(self.heat_system_id, str): + self.heat_system_id = str(self.heat_system_id) + + if self.height_carper_fiber is not None and not isinstance(self.height_carper_fiber, str): + self.height_carper_fiber = str(self.height_carper_fiber) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.indoor_space is not None and not isinstance(self.indoor_space, IndoorSpaceEnum): + self.indoor_space = IndoorSpaceEnum(self.indoor_space) + + if self.indoor_surf is not None and not isinstance(self.indoor_surf, IndoorSurfEnum): + self.indoor_surf = IndoorSurfEnum(self.indoor_surf) + + if self.inside_lux is not None and not isinstance(self.inside_lux, str): + self.inside_lux = str(self.inside_lux) + + if self.int_wall_cond is not None and not isinstance(self.int_wall_cond, IntWallCondEnum): + self.int_wall_cond = IntWallCondEnum(self.int_wall_cond) + + if self.last_clean is not None and not isinstance(self.last_clean, str): + self.last_clean = str(self.last_clean) + + if not isinstance(self.light_type, list): + self.light_type = [self.light_type] if self.light_type is not None else [] + self.light_type = [v if isinstance(v, LightTypeEnum) else LightTypeEnum(v) for v in self.light_type] + + if self.max_occup is not None and not isinstance(self.max_occup, str): + self.max_occup = str(self.max_occup) + + if self.mech_struc is not None and not isinstance(self.mech_struc, MechStrucEnum): + self.mech_struc = MechStrucEnum(self.mech_struc) + + if self.number_pets is not None and not isinstance(self.number_pets, str): + self.number_pets = str(self.number_pets) + + if self.number_plants is not None and not isinstance(self.number_plants, str): + self.number_plants = str(self.number_plants) + + if self.number_resident is not None and not isinstance(self.number_resident, str): + self.number_resident = str(self.number_resident) + + if self.occup_density_samp is not None and not isinstance(self.occup_density_samp, str): + self.occup_density_samp = str(self.occup_density_samp) + + if self.occup_document is not None and not isinstance(self.occup_document, OccupDocumentEnum): + self.occup_document = OccupDocumentEnum(self.occup_document) + + if self.occup_samp is not None and not isinstance(self.occup_samp, str): + self.occup_samp = str(self.occup_samp) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.pres_animal_insect is not None and not isinstance(self.pres_animal_insect, str): + self.pres_animal_insect = str(self.pres_animal_insect) + + if self.quad_pos is not None and not isinstance(self.quad_pos, QuadPosEnum): + self.quad_pos = QuadPosEnum(self.quad_pos) + + if self.rel_air_humidity is not None and not isinstance(self.rel_air_humidity, str): + self.rel_air_humidity = str(self.rel_air_humidity) + + if self.rel_humidity_out is not None and not isinstance(self.rel_humidity_out, str): + self.rel_humidity_out = str(self.rel_humidity_out) + + if self.rel_samp_loc is not None and not isinstance(self.rel_samp_loc, RelSampLocEnum): + self.rel_samp_loc = RelSampLocEnum(self.rel_samp_loc) + + if self.room_air_exch_rate is not None and not isinstance(self.room_air_exch_rate, str): + self.room_air_exch_rate = str(self.room_air_exch_rate) + + if self.room_architec_elem is not None and not isinstance(self.room_architec_elem, str): + self.room_architec_elem = str(self.room_architec_elem) + + if self.room_condt is not None and not isinstance(self.room_condt, RoomCondtEnum): + self.room_condt = RoomCondtEnum(self.room_condt) + + if self.room_connected is not None and not isinstance(self.room_connected, RoomConnectedEnum): + self.room_connected = RoomConnectedEnum(self.room_connected) + + if self.room_count is not None and not isinstance(self.room_count, str): + self.room_count = str(self.room_count) + + if self.room_dim is not None and not isinstance(self.room_dim, str): + self.room_dim = str(self.room_dim) + + if self.room_door_dist is not None and not isinstance(self.room_door_dist, str): + self.room_door_dist = str(self.room_door_dist) + + if self.room_door_share is not None and not isinstance(self.room_door_share, str): + self.room_door_share = str(self.room_door_share) + + if self.room_hallway is not None and not isinstance(self.room_hallway, str): + self.room_hallway = str(self.room_hallway) + + if self.room_loc is not None and not isinstance(self.room_loc, RoomLocEnum): + self.room_loc = RoomLocEnum(self.room_loc) + + if self.room_moist_dam_hist is not None and not isinstance(self.room_moist_dam_hist, int): + self.room_moist_dam_hist = int(self.room_moist_dam_hist) + + if self.room_net_area is not None and not isinstance(self.room_net_area, str): + self.room_net_area = str(self.room_net_area) + + if self.room_occup is not None and not isinstance(self.room_occup, str): + self.room_occup = str(self.room_occup) + + if self.room_samp_pos is not None and not isinstance(self.room_samp_pos, RoomSampPosEnum): + self.room_samp_pos = RoomSampPosEnum(self.room_samp_pos) + + if self.room_type is not None and not isinstance(self.room_type, RoomTypeEnum): + self.room_type = RoomTypeEnum(self.room_type) + + if self.room_vol is not None and not isinstance(self.room_vol, str): + self.room_vol = str(self.room_vol) + + if self.room_wall_share is not None and not isinstance(self.room_wall_share, str): + self.room_wall_share = str(self.room_wall_share) + + if self.room_window_count is not None and not isinstance(self.room_window_count, int): + self.room_window_count = int(self.room_window_count) + + if self.samp_floor is not None and not isinstance(self.samp_floor, SampFloorEnum): + self.samp_floor = SampFloorEnum(self.samp_floor) + + if self.samp_room_id is not None and not isinstance(self.samp_room_id, str): + self.samp_room_id = str(self.samp_room_id) + + if self.samp_sort_meth is not None and not isinstance(self.samp_sort_meth, str): + self.samp_sort_meth = str(self.samp_sort_meth) + + if self.samp_time_out is not None and not isinstance(self.samp_time_out, str): + self.samp_time_out = str(self.samp_time_out) + + if self.samp_weather is not None and not isinstance(self.samp_weather, SampWeatherEnum): + self.samp_weather = SampWeatherEnum(self.samp_weather) + + if self.season is not None and not isinstance(self.season, str): + self.season = str(self.season) + + if self.season_use is not None and not isinstance(self.season_use, SeasonUseEnum): + self.season_use = SeasonUseEnum(self.season_use) + + if self.shad_dev_water_mold is not None and not isinstance(self.shad_dev_water_mold, str): + self.shad_dev_water_mold = str(self.shad_dev_water_mold) + + if self.shading_device_cond is not None and not isinstance(self.shading_device_cond, ShadingDeviceCondEnum): + self.shading_device_cond = ShadingDeviceCondEnum(self.shading_device_cond) + + if self.shading_device_loc is not None and not isinstance(self.shading_device_loc, str): + self.shading_device_loc = str(self.shading_device_loc) + + if self.shading_device_mat is not None and not isinstance(self.shading_device_mat, str): + self.shading_device_mat = str(self.shading_device_mat) + + if self.shading_device_type is not None and not isinstance(self.shading_device_type, ShadingDeviceTypeEnum): + self.shading_device_type = ShadingDeviceTypeEnum(self.shading_device_type) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.space_typ_state is not None and not isinstance(self.space_typ_state, str): + self.space_typ_state = str(self.space_typ_state) + + if self.specific is not None and not isinstance(self.specific, SpecificEnum): + self.specific = SpecificEnum(self.specific) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.specific_humidity is not None and not isinstance(self.specific_humidity, str): + self.specific_humidity = str(self.specific_humidity) + + if not isinstance(self.substructure_type, list): + self.substructure_type = [self.substructure_type] if self.substructure_type is not None else [] + self.substructure_type = [v if isinstance(v, SubstructureTypeEnum) else SubstructureTypeEnum(v) for v in self.substructure_type] + + if not isinstance(self.surf_air_cont, list): + self.surf_air_cont = [self.surf_air_cont] if self.surf_air_cont is not None else [] + self.surf_air_cont = [v if isinstance(v, SurfAirContEnum) else SurfAirContEnum(v) for v in self.surf_air_cont] + + if self.surf_humidity is not None and not isinstance(self.surf_humidity, str): + self.surf_humidity = str(self.surf_humidity) + + if self.surf_material is not None and not isinstance(self.surf_material, SurfMaterialEnum): + self.surf_material = SurfMaterialEnum(self.surf_material) + + if self.surf_moisture is not None and not isinstance(self.surf_moisture, str): + self.surf_moisture = str(self.surf_moisture) + + if self.surf_moisture_ph is not None and not isinstance(self.surf_moisture_ph, float): + self.surf_moisture_ph = float(self.surf_moisture_ph) + + if self.surf_temp is not None and not isinstance(self.surf_temp, str): + self.surf_temp = str(self.surf_temp) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.temp_out is not None and not isinstance(self.temp_out, str): + self.temp_out = str(self.temp_out) + + if self.train_line is not None and not isinstance(self.train_line, TrainLineEnum): + self.train_line = TrainLineEnum(self.train_line) + + if self.train_stat_loc is not None and not isinstance(self.train_stat_loc, TrainStatLocEnum): + self.train_stat_loc = TrainStatLocEnum(self.train_stat_loc) + + if self.train_stop_loc is not None and not isinstance(self.train_stop_loc, TrainStopLocEnum): + self.train_stop_loc = TrainStopLocEnum(self.train_stop_loc) + + if self.typ_occup_density is not None and not isinstance(self.typ_occup_density, float): + self.typ_occup_density = float(self.typ_occup_density) + + if self.ventilation_type is not None and not isinstance(self.ventilation_type, str): + self.ventilation_type = str(self.ventilation_type) + + if self.vis_media is not None and not isinstance(self.vis_media, VisMediaEnum): + self.vis_media = VisMediaEnum(self.vis_media) + + if self.wall_area is not None and not isinstance(self.wall_area, str): + self.wall_area = str(self.wall_area) + + if self.wall_const_type is not None and not isinstance(self.wall_const_type, WallConstTypeEnum): + self.wall_const_type = WallConstTypeEnum(self.wall_const_type) + + if self.wall_finish_mat is not None and not isinstance(self.wall_finish_mat, WallFinishMatEnum): + self.wall_finish_mat = WallFinishMatEnum(self.wall_finish_mat) + + if self.wall_height is not None and not isinstance(self.wall_height, str): + self.wall_height = str(self.wall_height) + + if self.wall_loc is not None and not isinstance(self.wall_loc, WallLocEnum): + self.wall_loc = WallLocEnum(self.wall_loc) + + if self.wall_surf_treatment is not None and not isinstance(self.wall_surf_treatment, WallSurfTreatmentEnum): + self.wall_surf_treatment = WallSurfTreatmentEnum(self.wall_surf_treatment) + + if self.wall_texture is not None and not isinstance(self.wall_texture, WallTextureEnum): + self.wall_texture = WallTextureEnum(self.wall_texture) + + if self.wall_thermal_mass is not None and not isinstance(self.wall_thermal_mass, str): + self.wall_thermal_mass = str(self.wall_thermal_mass) + + if self.wall_water_mold is not None and not isinstance(self.wall_water_mold, str): + self.wall_water_mold = str(self.wall_water_mold) + + if self.water_feat_size is not None and not isinstance(self.water_feat_size, str): + self.water_feat_size = str(self.water_feat_size) + + if self.water_feat_type is not None and not isinstance(self.water_feat_type, WaterFeatTypeEnum): + self.water_feat_type = WaterFeatTypeEnum(self.water_feat_type) + + if self.weekday is not None and not isinstance(self.weekday, WeekdayEnum): + self.weekday = WeekdayEnum(self.weekday) + + if self.window_cond is not None and not isinstance(self.window_cond, WindowCondEnum): + self.window_cond = WindowCondEnum(self.window_cond) + + if self.window_cover is not None and not isinstance(self.window_cover, WindowCoverEnum): + self.window_cover = WindowCoverEnum(self.window_cover) + + if self.window_horiz_pos is not None and not isinstance(self.window_horiz_pos, WindowHorizPosEnum): + self.window_horiz_pos = WindowHorizPosEnum(self.window_horiz_pos) + + if self.window_loc is not None and not isinstance(self.window_loc, WindowLocEnum): + self.window_loc = WindowLocEnum(self.window_loc) + + if self.window_mat is not None and not isinstance(self.window_mat, WindowMatEnum): + self.window_mat = WindowMatEnum(self.window_mat) + + if self.window_open_freq is not None and not isinstance(self.window_open_freq, str): + self.window_open_freq = str(self.window_open_freq) + + if self.window_size is not None and not isinstance(self.window_size, str): + self.window_size = str(self.window_size) + + if self.window_status is not None and not isinstance(self.window_status, str): + self.window_status = str(self.window_status) + + if self.window_type is not None and not isinstance(self.window_type, WindowTypeEnum): + self.window_type = WindowTypeEnum(self.window_type) + + if self.window_vert_pos is not None and not isinstance(self.window_vert_pos, WindowVertPosEnum): + self.window_vert_pos = WindowVertPosEnum(self.window_vert_pos) + + if self.window_water_mold is not None and not isinstance(self.window_water_mold, str): + self.window_water_mold = str(self.window_water_mold) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class EmslInterface(DhInterface): + """ + emsl dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.EmslInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:EmslInterface" + class_name: ClassVar[str] = "EmslInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.EmslInterface + + emsl_store_temp: float = None + project_id: str = None + sample_shipped: str = None + sample_type: Union[str, "SampleTypeEnum"] = None + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + replicate_number: Optional[int] = None + technical_reps: Optional[int] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.emsl_store_temp): + self.MissingRequiredField("emsl_store_temp") + if not isinstance(self.emsl_store_temp, float): + self.emsl_store_temp = float(self.emsl_store_temp) + + if self._is_empty(self.project_id): + self.MissingRequiredField("project_id") + if not isinstance(self.project_id, str): + self.project_id = str(self.project_id) + + if self._is_empty(self.sample_shipped): + self.MissingRequiredField("sample_shipped") + if not isinstance(self.sample_shipped, str): + self.sample_shipped = str(self.sample_shipped) + + if self._is_empty(self.sample_type): + self.MissingRequiredField("sample_type") + if not isinstance(self.sample_type, SampleTypeEnum): + self.sample_type = SampleTypeEnum(self.sample_type) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.replicate_number is not None and not isinstance(self.replicate_number, int): + self.replicate_number = int(self.replicate_number) + + if self.technical_reps is not None and not isinstance(self.technical_reps, int): + self.technical_reps = int(self.technical_reps) + + if self.emsl_store_temp is not None and not isinstance(self.emsl_store_temp, str): + self.emsl_store_temp = str(self.emsl_store_temp) + + if self.project_id is not None and not isinstance(self.project_id, str): + self.project_id = str(self.project_id) + + if self.replicate_number is not None and not isinstance(self.replicate_number, str): + self.replicate_number = str(self.replicate_number) + + if self.sample_shipped is not None and not isinstance(self.sample_shipped, str): + self.sample_shipped = str(self.sample_shipped) + + if self.sample_type is not None and not isinstance(self.sample_type, SampleTypeEnum): + self.sample_type = SampleTypeEnum(self.sample_type) + + if self.technical_reps is not None and not isinstance(self.technical_reps, str): + self.technical_reps = str(self.technical_reps) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class HcrCoresInterface(DhInterface): + """ + hcr_cores dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HcrCoresInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:HcrCoresInterface" + class_name: ClassVar[str] = "HcrCoresInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HcrCoresInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + additional_info: Optional[str] = None + alkalinity: Optional[str] = None + alkalinity_method: Optional[str] = None + ammonium: Optional[str] = None + api: Optional[str] = None + aromatics_pc: Optional[str] = None + asphaltenes_pc: Optional[str] = None + basin: Optional[str] = None + benzene: Optional[str] = None + calcium: Optional[str] = None + chem_administration: Optional[str] = None + chloride: Optional[str] = None + collection_date: Optional[str] = None + density: Optional[str] = None + depos_env: Optional[Union[str, "DeposEnvEnum"]] = None + depth: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_inorg_phosp: Optional[str] = None + diss_iron: Optional[str] = None + diss_org_carb: Optional[str] = None + diss_oxygen_fluid: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + ethylbenzene: Optional[str] = None + experimental_factor: Optional[str] = None + field: Optional[str] = None + geo_loc_name: Optional[str] = None + hc_produced: Optional[Union[str, "HcProducedEnum"]] = None + hcr: Optional[Union[str, "HcrEnum"]] = None + hcr_fw_salinity: Optional[str] = None + hcr_geol_age: Optional[Union[str, "HcrGeolAgeEnum"]] = None + hcr_pressure: Optional[str] = None + hcr_temp: Optional[str] = None + horizon_meth: Optional[str] = None + lat_lon: Optional[str] = None + lithology: Optional[Union[str, "LithologyEnum"]] = None + magnesium: Optional[str] = None + misc_param: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + org_count_qpcr_info: Optional[str] = None + organism_count: Optional[str] = None + owc_tvdss: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + permeability: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + porosity: Optional[str] = None + potassium: Optional[str] = None + pour_point: Optional[str] = None + pressure: Optional[str] = None + reservoir: Optional[str] = None + resins_pc: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_md: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + samp_subtype: Optional[Union[str, "SampSubtypeEnum"]] = None + samp_transport_cond: Optional[str] = None + samp_tvdss: Optional[str] = None + samp_type: Optional[str] = None + samp_well_name: Optional[str] = None + sample_link: Optional[str] = None + saturates_pc: Optional[str] = None + size_frac: Optional[str] = None + sodium: Optional[str] = None + specific_ecosystem: Optional[str] = None + sr_dep_env: Optional[Union[str, "SrDepEnvEnum"]] = None + sr_geol_age: Optional[Union[str, "SrGeolAgeEnum"]] = None + sr_kerog_type: Optional[Union[str, "SrKerogTypeEnum"]] = None + sr_lithology: Optional[Union[str, "SrLithologyEnum"]] = None + sulfate: Optional[str] = None + sulfate_fw: Optional[str] = None + sulfide: Optional[str] = None + suspend_solids: Optional[str] = None + tan: Optional[str] = None + temp: Optional[str] = None + toluene: Optional[str] = None + tot_iron: Optional[str] = None + tot_nitro: Optional[str] = None + tot_phosp: Optional[str] = None + tot_sulfur: Optional[str] = None + tvdss_of_hcr_press: Optional[str] = None + tvdss_of_hcr_temp: Optional[str] = None + vfa: Optional[str] = None + vfa_fw: Optional[str] = None + viscosity: Optional[str] = None + win: Optional[str] = None + xylene: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.additional_info is not None and not isinstance(self.additional_info, str): + self.additional_info = str(self.additional_info) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.api is not None and not isinstance(self.api, str): + self.api = str(self.api) + + if self.aromatics_pc is not None and not isinstance(self.aromatics_pc, str): + self.aromatics_pc = str(self.aromatics_pc) + + if self.asphaltenes_pc is not None and not isinstance(self.asphaltenes_pc, str): + self.asphaltenes_pc = str(self.asphaltenes_pc) + + if self.basin is not None and not isinstance(self.basin, str): + self.basin = str(self.basin) + + if self.benzene is not None and not isinstance(self.benzene, str): + self.benzene = str(self.benzene) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depos_env is not None and not isinstance(self.depos_env, DeposEnvEnum): + self.depos_env = DeposEnvEnum(self.depos_env) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_iron is not None and not isinstance(self.diss_iron, str): + self.diss_iron = str(self.diss_iron) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_oxygen_fluid is not None and not isinstance(self.diss_oxygen_fluid, str): + self.diss_oxygen_fluid = str(self.diss_oxygen_fluid) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.ethylbenzene is not None and not isinstance(self.ethylbenzene, str): + self.ethylbenzene = str(self.ethylbenzene) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.field is not None and not isinstance(self.field, str): + self.field = str(self.field) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.hc_produced is not None and not isinstance(self.hc_produced, HcProducedEnum): + self.hc_produced = HcProducedEnum(self.hc_produced) + + if self.hcr is not None and not isinstance(self.hcr, HcrEnum): + self.hcr = HcrEnum(self.hcr) + + if self.hcr_fw_salinity is not None and not isinstance(self.hcr_fw_salinity, str): + self.hcr_fw_salinity = str(self.hcr_fw_salinity) + + if self.hcr_geol_age is not None and not isinstance(self.hcr_geol_age, HcrGeolAgeEnum): + self.hcr_geol_age = HcrGeolAgeEnum(self.hcr_geol_age) + + if self.hcr_pressure is not None and not isinstance(self.hcr_pressure, str): + self.hcr_pressure = str(self.hcr_pressure) + + if self.hcr_temp is not None and not isinstance(self.hcr_temp, str): + self.hcr_temp = str(self.hcr_temp) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.lithology is not None and not isinstance(self.lithology, LithologyEnum): + self.lithology = LithologyEnum(self.lithology) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.org_count_qpcr_info is not None and not isinstance(self.org_count_qpcr_info, str): + self.org_count_qpcr_info = str(self.org_count_qpcr_info) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.owc_tvdss is not None and not isinstance(self.owc_tvdss, str): + self.owc_tvdss = str(self.owc_tvdss) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.permeability is not None and not isinstance(self.permeability, str): + self.permeability = str(self.permeability) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.porosity is not None and not isinstance(self.porosity, str): + self.porosity = str(self.porosity) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pour_point is not None and not isinstance(self.pour_point, str): + self.pour_point = str(self.pour_point) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.reservoir is not None and not isinstance(self.reservoir, str): + self.reservoir = str(self.reservoir) + + if self.resins_pc is not None and not isinstance(self.resins_pc, str): + self.resins_pc = str(self.resins_pc) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_md is not None and not isinstance(self.samp_md, str): + self.samp_md = str(self.samp_md) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.samp_subtype is not None and not isinstance(self.samp_subtype, SampSubtypeEnum): + self.samp_subtype = SampSubtypeEnum(self.samp_subtype) + + if self.samp_transport_cond is not None and not isinstance(self.samp_transport_cond, str): + self.samp_transport_cond = str(self.samp_transport_cond) + + if self.samp_tvdss is not None and not isinstance(self.samp_tvdss, str): + self.samp_tvdss = str(self.samp_tvdss) + + if self.samp_type is not None and not isinstance(self.samp_type, str): + self.samp_type = str(self.samp_type) + + if self.samp_well_name is not None and not isinstance(self.samp_well_name, str): + self.samp_well_name = str(self.samp_well_name) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.saturates_pc is not None and not isinstance(self.saturates_pc, str): + self.saturates_pc = str(self.saturates_pc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sr_dep_env is not None and not isinstance(self.sr_dep_env, SrDepEnvEnum): + self.sr_dep_env = SrDepEnvEnum(self.sr_dep_env) + + if self.sr_geol_age is not None and not isinstance(self.sr_geol_age, SrGeolAgeEnum): + self.sr_geol_age = SrGeolAgeEnum(self.sr_geol_age) + + if self.sr_kerog_type is not None and not isinstance(self.sr_kerog_type, SrKerogTypeEnum): + self.sr_kerog_type = SrKerogTypeEnum(self.sr_kerog_type) + + if self.sr_lithology is not None and not isinstance(self.sr_lithology, SrLithologyEnum): + self.sr_lithology = SrLithologyEnum(self.sr_lithology) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfate_fw is not None and not isinstance(self.sulfate_fw, str): + self.sulfate_fw = str(self.sulfate_fw) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.tan is not None and not isinstance(self.tan, str): + self.tan = str(self.tan) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.toluene is not None and not isinstance(self.toluene, str): + self.toluene = str(self.toluene) + + if self.tot_iron is not None and not isinstance(self.tot_iron, str): + self.tot_iron = str(self.tot_iron) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.tot_sulfur is not None and not isinstance(self.tot_sulfur, str): + self.tot_sulfur = str(self.tot_sulfur) + + if self.tvdss_of_hcr_press is not None and not isinstance(self.tvdss_of_hcr_press, str): + self.tvdss_of_hcr_press = str(self.tvdss_of_hcr_press) + + if self.tvdss_of_hcr_temp is not None and not isinstance(self.tvdss_of_hcr_temp, str): + self.tvdss_of_hcr_temp = str(self.tvdss_of_hcr_temp) + + if self.vfa is not None and not isinstance(self.vfa, str): + self.vfa = str(self.vfa) + + if self.vfa_fw is not None and not isinstance(self.vfa_fw, str): + self.vfa_fw = str(self.vfa_fw) + + if self.viscosity is not None and not isinstance(self.viscosity, str): + self.viscosity = str(self.viscosity) + + if self.win is not None and not isinstance(self.win, str): + self.win = str(self.win) + + if self.xylene is not None and not isinstance(self.xylene, str): + self.xylene = str(self.xylene) + + if self.additional_info is not None and not isinstance(self.additional_info, str): + self.additional_info = str(self.additional_info) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.api is not None and not isinstance(self.api, str): + self.api = str(self.api) + + if self.aromatics_pc is not None and not isinstance(self.aromatics_pc, str): + self.aromatics_pc = str(self.aromatics_pc) + + if self.asphaltenes_pc is not None and not isinstance(self.asphaltenes_pc, str): + self.asphaltenes_pc = str(self.asphaltenes_pc) + + if self.basin is not None and not isinstance(self.basin, str): + self.basin = str(self.basin) + + if self.benzene is not None and not isinstance(self.benzene, str): + self.benzene = str(self.benzene) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depos_env is not None and not isinstance(self.depos_env, DeposEnvEnum): + self.depos_env = DeposEnvEnum(self.depos_env) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_iron is not None and not isinstance(self.diss_iron, str): + self.diss_iron = str(self.diss_iron) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_oxygen_fluid is not None and not isinstance(self.diss_oxygen_fluid, str): + self.diss_oxygen_fluid = str(self.diss_oxygen_fluid) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.ethylbenzene is not None and not isinstance(self.ethylbenzene, str): + self.ethylbenzene = str(self.ethylbenzene) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.field is not None and not isinstance(self.field, str): + self.field = str(self.field) + + if self.hc_produced is not None and not isinstance(self.hc_produced, HcProducedEnum): + self.hc_produced = HcProducedEnum(self.hc_produced) + + if self.hcr is not None and not isinstance(self.hcr, HcrEnum): + self.hcr = HcrEnum(self.hcr) + + if self.hcr_fw_salinity is not None and not isinstance(self.hcr_fw_salinity, str): + self.hcr_fw_salinity = str(self.hcr_fw_salinity) + + if self.hcr_geol_age is not None and not isinstance(self.hcr_geol_age, HcrGeolAgeEnum): + self.hcr_geol_age = HcrGeolAgeEnum(self.hcr_geol_age) + + if self.hcr_pressure is not None and not isinstance(self.hcr_pressure, str): + self.hcr_pressure = str(self.hcr_pressure) + + if self.hcr_temp is not None and not isinstance(self.hcr_temp, str): + self.hcr_temp = str(self.hcr_temp) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lithology is not None and not isinstance(self.lithology, LithologyEnum): + self.lithology = LithologyEnum(self.lithology) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.org_count_qpcr_info is not None and not isinstance(self.org_count_qpcr_info, str): + self.org_count_qpcr_info = str(self.org_count_qpcr_info) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.owc_tvdss is not None and not isinstance(self.owc_tvdss, str): + self.owc_tvdss = str(self.owc_tvdss) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.permeability is not None and not isinstance(self.permeability, str): + self.permeability = str(self.permeability) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.porosity is not None and not isinstance(self.porosity, str): + self.porosity = str(self.porosity) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pour_point is not None and not isinstance(self.pour_point, str): + self.pour_point = str(self.pour_point) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.reservoir is not None and not isinstance(self.reservoir, str): + self.reservoir = str(self.reservoir) + + if self.resins_pc is not None and not isinstance(self.resins_pc, str): + self.resins_pc = str(self.resins_pc) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_md is not None and not isinstance(self.samp_md, str): + self.samp_md = str(self.samp_md) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_subtype is not None and not isinstance(self.samp_subtype, SampSubtypeEnum): + self.samp_subtype = SampSubtypeEnum(self.samp_subtype) + + if self.samp_transport_cond is not None and not isinstance(self.samp_transport_cond, str): + self.samp_transport_cond = str(self.samp_transport_cond) + + if self.samp_tvdss is not None and not isinstance(self.samp_tvdss, str): + self.samp_tvdss = str(self.samp_tvdss) + + if self.samp_type is not None and not isinstance(self.samp_type, str): + self.samp_type = str(self.samp_type) + + if self.samp_well_name is not None and not isinstance(self.samp_well_name, str): + self.samp_well_name = str(self.samp_well_name) + + if self.saturates_pc is not None and not isinstance(self.saturates_pc, str): + self.saturates_pc = str(self.saturates_pc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sr_dep_env is not None and not isinstance(self.sr_dep_env, SrDepEnvEnum): + self.sr_dep_env = SrDepEnvEnum(self.sr_dep_env) + + if self.sr_geol_age is not None and not isinstance(self.sr_geol_age, SrGeolAgeEnum): + self.sr_geol_age = SrGeolAgeEnum(self.sr_geol_age) + + if self.sr_kerog_type is not None and not isinstance(self.sr_kerog_type, SrKerogTypeEnum): + self.sr_kerog_type = SrKerogTypeEnum(self.sr_kerog_type) + + if self.sr_lithology is not None and not isinstance(self.sr_lithology, SrLithologyEnum): + self.sr_lithology = SrLithologyEnum(self.sr_lithology) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfate_fw is not None and not isinstance(self.sulfate_fw, str): + self.sulfate_fw = str(self.sulfate_fw) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.tan is not None and not isinstance(self.tan, str): + self.tan = str(self.tan) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.toluene is not None and not isinstance(self.toluene, str): + self.toluene = str(self.toluene) + + if self.tot_iron is not None and not isinstance(self.tot_iron, str): + self.tot_iron = str(self.tot_iron) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.tot_sulfur is not None and not isinstance(self.tot_sulfur, str): + self.tot_sulfur = str(self.tot_sulfur) + + if self.tvdss_of_hcr_press is not None and not isinstance(self.tvdss_of_hcr_press, str): + self.tvdss_of_hcr_press = str(self.tvdss_of_hcr_press) + + if self.tvdss_of_hcr_temp is not None and not isinstance(self.tvdss_of_hcr_temp, str): + self.tvdss_of_hcr_temp = str(self.tvdss_of_hcr_temp) + + if self.vfa is not None and not isinstance(self.vfa, str): + self.vfa = str(self.vfa) + + if self.vfa_fw is not None and not isinstance(self.vfa_fw, str): + self.vfa_fw = str(self.vfa_fw) + + if self.viscosity is not None and not isinstance(self.viscosity, str): + self.viscosity = str(self.viscosity) + + if self.win is not None and not isinstance(self.win, str): + self.win = str(self.win) + + if self.xylene is not None and not isinstance(self.xylene, str): + self.xylene = str(self.xylene) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class HcrFluidsSwabsInterface(DhInterface): + """ + hcr_fluids_swabs dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:HcrFluidsSwabsInterface" + class_name: ClassVar[str] = "HcrFluidsSwabsInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + add_recov_method: Optional[str] = None + additional_info: Optional[str] = None + alkalinity: Optional[str] = None + alkalinity_method: Optional[str] = None + ammonium: Optional[str] = None + api: Optional[str] = None + aromatics_pc: Optional[str] = None + asphaltenes_pc: Optional[str] = None + basin: Optional[str] = None + benzene: Optional[str] = None + biocide: Optional[str] = None + biocide_admin_method: Optional[str] = None + calcium: Optional[str] = None + chem_administration: Optional[str] = None + chem_treat_method: Optional[str] = None + chem_treatment: Optional[str] = None + chloride: Optional[str] = None + collection_date: Optional[str] = None + density: Optional[str] = None + depos_env: Optional[Union[str, "DeposEnvEnum"]] = None + depth: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_inorg_phosp: Optional[str] = None + diss_iron: Optional[str] = None + diss_org_carb: Optional[str] = None + diss_oxygen_fluid: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + ethylbenzene: Optional[str] = None + experimental_factor: Optional[str] = None + field: Optional[str] = None + geo_loc_name: Optional[str] = None + hc_produced: Optional[Union[str, "HcProducedEnum"]] = None + hcr: Optional[Union[str, "HcrEnum"]] = None + hcr_fw_salinity: Optional[str] = None + hcr_geol_age: Optional[Union[str, "HcrGeolAgeEnum"]] = None + hcr_pressure: Optional[str] = None + hcr_temp: Optional[str] = None + horizon_meth: Optional[str] = None + iw_bt_date_well: Optional[str] = None + iwf: Optional[str] = None + lat_lon: Optional[str] = None + lithology: Optional[Union[str, "LithologyEnum"]] = None + magnesium: Optional[str] = None + misc_param: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + org_count_qpcr_info: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + potassium: Optional[str] = None + pour_point: Optional[str] = None + pressure: Optional[str] = None + prod_rate: Optional[str] = None + prod_start_date: Optional[str] = None + reservoir: Optional[str] = None + resins_pc: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_collect_point: Optional[Union[str, "SampCollectPointEnum"]] = None + samp_loc_corr_rate: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_preserv: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + samp_subtype: Optional[Union[str, "SampSubtypeEnum"]] = None + samp_transport_cond: Optional[str] = None + samp_type: Optional[str] = None + samp_well_name: Optional[str] = None + sample_link: Optional[str] = None + saturates_pc: Optional[str] = None + size_frac: Optional[str] = None + sodium: Optional[str] = None + specific_ecosystem: Optional[str] = None + sulfate: Optional[str] = None + sulfate_fw: Optional[str] = None + sulfide: Optional[str] = None + suspend_solids: Optional[str] = None + tan: Optional[str] = None + temp: Optional[str] = None + toluene: Optional[str] = None + tot_iron: Optional[str] = None + tot_nitro: Optional[str] = None + tot_phosp: Optional[str] = None + tot_sulfur: Optional[str] = None + tvdss_of_hcr_press: Optional[str] = None + tvdss_of_hcr_temp: Optional[str] = None + vfa: Optional[str] = None + vfa_fw: Optional[str] = None + viscosity: Optional[str] = None + water_cut: Optional[str] = None + water_prod_rate: Optional[str] = None + win: Optional[str] = None + xylene: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.add_recov_method is not None and not isinstance(self.add_recov_method, str): + self.add_recov_method = str(self.add_recov_method) + + if self.additional_info is not None and not isinstance(self.additional_info, str): + self.additional_info = str(self.additional_info) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.api is not None and not isinstance(self.api, str): + self.api = str(self.api) + + if self.aromatics_pc is not None and not isinstance(self.aromatics_pc, str): + self.aromatics_pc = str(self.aromatics_pc) + + if self.asphaltenes_pc is not None and not isinstance(self.asphaltenes_pc, str): + self.asphaltenes_pc = str(self.asphaltenes_pc) + + if self.basin is not None and not isinstance(self.basin, str): + self.basin = str(self.basin) + + if self.benzene is not None and not isinstance(self.benzene, str): + self.benzene = str(self.benzene) + + if self.biocide is not None and not isinstance(self.biocide, str): + self.biocide = str(self.biocide) + + if self.biocide_admin_method is not None and not isinstance(self.biocide_admin_method, str): + self.biocide_admin_method = str(self.biocide_admin_method) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_treat_method is not None and not isinstance(self.chem_treat_method, str): + self.chem_treat_method = str(self.chem_treat_method) + + if self.chem_treatment is not None and not isinstance(self.chem_treatment, str): + self.chem_treatment = str(self.chem_treatment) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depos_env is not None and not isinstance(self.depos_env, DeposEnvEnum): + self.depos_env = DeposEnvEnum(self.depos_env) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_iron is not None and not isinstance(self.diss_iron, str): + self.diss_iron = str(self.diss_iron) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_oxygen_fluid is not None and not isinstance(self.diss_oxygen_fluid, str): + self.diss_oxygen_fluid = str(self.diss_oxygen_fluid) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.ethylbenzene is not None and not isinstance(self.ethylbenzene, str): + self.ethylbenzene = str(self.ethylbenzene) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.field is not None and not isinstance(self.field, str): + self.field = str(self.field) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.hc_produced is not None and not isinstance(self.hc_produced, HcProducedEnum): + self.hc_produced = HcProducedEnum(self.hc_produced) + + if self.hcr is not None and not isinstance(self.hcr, HcrEnum): + self.hcr = HcrEnum(self.hcr) + + if self.hcr_fw_salinity is not None and not isinstance(self.hcr_fw_salinity, str): + self.hcr_fw_salinity = str(self.hcr_fw_salinity) + + if self.hcr_geol_age is not None and not isinstance(self.hcr_geol_age, HcrGeolAgeEnum): + self.hcr_geol_age = HcrGeolAgeEnum(self.hcr_geol_age) + + if self.hcr_pressure is not None and not isinstance(self.hcr_pressure, str): + self.hcr_pressure = str(self.hcr_pressure) + + if self.hcr_temp is not None and not isinstance(self.hcr_temp, str): + self.hcr_temp = str(self.hcr_temp) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.iw_bt_date_well is not None and not isinstance(self.iw_bt_date_well, str): + self.iw_bt_date_well = str(self.iw_bt_date_well) + + if self.iwf is not None and not isinstance(self.iwf, str): + self.iwf = str(self.iwf) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.lithology is not None and not isinstance(self.lithology, LithologyEnum): + self.lithology = LithologyEnum(self.lithology) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.org_count_qpcr_info is not None and not isinstance(self.org_count_qpcr_info, str): + self.org_count_qpcr_info = str(self.org_count_qpcr_info) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pour_point is not None and not isinstance(self.pour_point, str): + self.pour_point = str(self.pour_point) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.prod_rate is not None and not isinstance(self.prod_rate, str): + self.prod_rate = str(self.prod_rate) + + if self.prod_start_date is not None and not isinstance(self.prod_start_date, str): + self.prod_start_date = str(self.prod_start_date) + + if self.reservoir is not None and not isinstance(self.reservoir, str): + self.reservoir = str(self.reservoir) + + if self.resins_pc is not None and not isinstance(self.resins_pc, str): + self.resins_pc = str(self.resins_pc) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_collect_point is not None and not isinstance(self.samp_collect_point, SampCollectPointEnum): + self.samp_collect_point = SampCollectPointEnum(self.samp_collect_point) + + if self.samp_loc_corr_rate is not None and not isinstance(self.samp_loc_corr_rate, str): + self.samp_loc_corr_rate = str(self.samp_loc_corr_rate) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_preserv is not None and not isinstance(self.samp_preserv, str): + self.samp_preserv = str(self.samp_preserv) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.samp_subtype is not None and not isinstance(self.samp_subtype, SampSubtypeEnum): + self.samp_subtype = SampSubtypeEnum(self.samp_subtype) + + if self.samp_transport_cond is not None and not isinstance(self.samp_transport_cond, str): + self.samp_transport_cond = str(self.samp_transport_cond) + + if self.samp_type is not None and not isinstance(self.samp_type, str): + self.samp_type = str(self.samp_type) + + if self.samp_well_name is not None and not isinstance(self.samp_well_name, str): + self.samp_well_name = str(self.samp_well_name) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.saturates_pc is not None and not isinstance(self.saturates_pc, str): + self.saturates_pc = str(self.saturates_pc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfate_fw is not None and not isinstance(self.sulfate_fw, str): + self.sulfate_fw = str(self.sulfate_fw) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.tan is not None and not isinstance(self.tan, str): + self.tan = str(self.tan) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.toluene is not None and not isinstance(self.toluene, str): + self.toluene = str(self.toluene) + + if self.tot_iron is not None and not isinstance(self.tot_iron, str): + self.tot_iron = str(self.tot_iron) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.tot_sulfur is not None and not isinstance(self.tot_sulfur, str): + self.tot_sulfur = str(self.tot_sulfur) + + if self.tvdss_of_hcr_press is not None and not isinstance(self.tvdss_of_hcr_press, str): + self.tvdss_of_hcr_press = str(self.tvdss_of_hcr_press) + + if self.tvdss_of_hcr_temp is not None and not isinstance(self.tvdss_of_hcr_temp, str): + self.tvdss_of_hcr_temp = str(self.tvdss_of_hcr_temp) + + if self.vfa is not None and not isinstance(self.vfa, str): + self.vfa = str(self.vfa) + + if self.vfa_fw is not None and not isinstance(self.vfa_fw, str): + self.vfa_fw = str(self.vfa_fw) + + if self.viscosity is not None and not isinstance(self.viscosity, str): + self.viscosity = str(self.viscosity) + + if self.water_cut is not None and not isinstance(self.water_cut, str): + self.water_cut = str(self.water_cut) + + if self.water_prod_rate is not None and not isinstance(self.water_prod_rate, str): + self.water_prod_rate = str(self.water_prod_rate) + + if self.win is not None and not isinstance(self.win, str): + self.win = str(self.win) + + if self.xylene is not None and not isinstance(self.xylene, str): + self.xylene = str(self.xylene) + + if self.add_recov_method is not None and not isinstance(self.add_recov_method, str): + self.add_recov_method = str(self.add_recov_method) + + if self.additional_info is not None and not isinstance(self.additional_info, str): + self.additional_info = str(self.additional_info) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.api is not None and not isinstance(self.api, str): + self.api = str(self.api) + + if self.aromatics_pc is not None and not isinstance(self.aromatics_pc, str): + self.aromatics_pc = str(self.aromatics_pc) + + if self.asphaltenes_pc is not None and not isinstance(self.asphaltenes_pc, str): + self.asphaltenes_pc = str(self.asphaltenes_pc) + + if self.basin is not None and not isinstance(self.basin, str): + self.basin = str(self.basin) + + if self.benzene is not None and not isinstance(self.benzene, str): + self.benzene = str(self.benzene) + + if self.biocide is not None and not isinstance(self.biocide, str): + self.biocide = str(self.biocide) + + if self.biocide_admin_method is not None and not isinstance(self.biocide_admin_method, str): + self.biocide_admin_method = str(self.biocide_admin_method) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_treat_method is not None and not isinstance(self.chem_treat_method, str): + self.chem_treat_method = str(self.chem_treat_method) + + if self.chem_treatment is not None and not isinstance(self.chem_treatment, str): + self.chem_treatment = str(self.chem_treatment) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depos_env is not None and not isinstance(self.depos_env, DeposEnvEnum): + self.depos_env = DeposEnvEnum(self.depos_env) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_iron is not None and not isinstance(self.diss_iron, str): + self.diss_iron = str(self.diss_iron) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_oxygen_fluid is not None and not isinstance(self.diss_oxygen_fluid, str): + self.diss_oxygen_fluid = str(self.diss_oxygen_fluid) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.ethylbenzene is not None and not isinstance(self.ethylbenzene, str): + self.ethylbenzene = str(self.ethylbenzene) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.field is not None and not isinstance(self.field, str): + self.field = str(self.field) + + if self.hc_produced is not None and not isinstance(self.hc_produced, HcProducedEnum): + self.hc_produced = HcProducedEnum(self.hc_produced) + + if self.hcr is not None and not isinstance(self.hcr, HcrEnum): + self.hcr = HcrEnum(self.hcr) + + if self.hcr_fw_salinity is not None and not isinstance(self.hcr_fw_salinity, str): + self.hcr_fw_salinity = str(self.hcr_fw_salinity) + + if self.hcr_geol_age is not None and not isinstance(self.hcr_geol_age, HcrGeolAgeEnum): + self.hcr_geol_age = HcrGeolAgeEnum(self.hcr_geol_age) + + if self.hcr_pressure is not None and not isinstance(self.hcr_pressure, str): + self.hcr_pressure = str(self.hcr_pressure) + + if self.hcr_temp is not None and not isinstance(self.hcr_temp, str): + self.hcr_temp = str(self.hcr_temp) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.iw_bt_date_well is not None and not isinstance(self.iw_bt_date_well, str): + self.iw_bt_date_well = str(self.iw_bt_date_well) + + if self.iwf is not None and not isinstance(self.iwf, str): + self.iwf = str(self.iwf) + + if self.lithology is not None and not isinstance(self.lithology, LithologyEnum): + self.lithology = LithologyEnum(self.lithology) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.org_count_qpcr_info is not None and not isinstance(self.org_count_qpcr_info, str): + self.org_count_qpcr_info = str(self.org_count_qpcr_info) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pour_point is not None and not isinstance(self.pour_point, str): + self.pour_point = str(self.pour_point) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.prod_rate is not None and not isinstance(self.prod_rate, str): + self.prod_rate = str(self.prod_rate) + + if self.prod_start_date is not None and not isinstance(self.prod_start_date, str): + self.prod_start_date = str(self.prod_start_date) + + if self.reservoir is not None and not isinstance(self.reservoir, str): + self.reservoir = str(self.reservoir) + + if self.resins_pc is not None and not isinstance(self.resins_pc, str): + self.resins_pc = str(self.resins_pc) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_collect_point is not None and not isinstance(self.samp_collect_point, SampCollectPointEnum): + self.samp_collect_point = SampCollectPointEnum(self.samp_collect_point) + + if self.samp_loc_corr_rate is not None and not isinstance(self.samp_loc_corr_rate, str): + self.samp_loc_corr_rate = str(self.samp_loc_corr_rate) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_preserv is not None and not isinstance(self.samp_preserv, str): + self.samp_preserv = str(self.samp_preserv) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_subtype is not None and not isinstance(self.samp_subtype, SampSubtypeEnum): + self.samp_subtype = SampSubtypeEnum(self.samp_subtype) + + if self.samp_transport_cond is not None and not isinstance(self.samp_transport_cond, str): + self.samp_transport_cond = str(self.samp_transport_cond) + + if self.samp_type is not None and not isinstance(self.samp_type, str): + self.samp_type = str(self.samp_type) + + if self.samp_well_name is not None and not isinstance(self.samp_well_name, str): + self.samp_well_name = str(self.samp_well_name) + + if self.saturates_pc is not None and not isinstance(self.saturates_pc, str): + self.saturates_pc = str(self.saturates_pc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfate_fw is not None and not isinstance(self.sulfate_fw, str): + self.sulfate_fw = str(self.sulfate_fw) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.tan is not None and not isinstance(self.tan, str): + self.tan = str(self.tan) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.toluene is not None and not isinstance(self.toluene, str): + self.toluene = str(self.toluene) + + if self.tot_iron is not None and not isinstance(self.tot_iron, str): + self.tot_iron = str(self.tot_iron) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.tot_sulfur is not None and not isinstance(self.tot_sulfur, str): + self.tot_sulfur = str(self.tot_sulfur) + + if self.tvdss_of_hcr_press is not None and not isinstance(self.tvdss_of_hcr_press, str): + self.tvdss_of_hcr_press = str(self.tvdss_of_hcr_press) + + if self.tvdss_of_hcr_temp is not None and not isinstance(self.tvdss_of_hcr_temp, str): + self.tvdss_of_hcr_temp = str(self.tvdss_of_hcr_temp) + + if self.vfa is not None and not isinstance(self.vfa, str): + self.vfa = str(self.vfa) + + if self.vfa_fw is not None and not isinstance(self.vfa_fw, str): + self.vfa_fw = str(self.vfa_fw) + + if self.viscosity is not None and not isinstance(self.viscosity, str): + self.viscosity = str(self.viscosity) + + if self.water_cut is not None and not isinstance(self.water_cut, str): + self.water_cut = str(self.water_cut) + + if self.water_prod_rate is not None and not isinstance(self.water_prod_rate, str): + self.water_prod_rate = str(self.water_prod_rate) + + if self.win is not None and not isinstance(self.win, str): + self.win = str(self.win) + + if self.xylene is not None and not isinstance(self.xylene, str): + self.xylene = str(self.xylene) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class HostAssociatedInterface(DhInterface): + """ + host_associated dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HostAssociatedInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:HostAssociatedInterface" + class_name: ClassVar[str] = "HostAssociatedInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.HostAssociatedInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alt: Optional[str] = None + ances_data: Optional[str] = None + biol_stat: Optional[Union[str, "BiolStatEnum"]] = None + blood_press_diast: Optional[str] = None + blood_press_syst: Optional[str] = None + chem_administration: Optional[str] = None + collection_date: Optional[str] = None + depth: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + genetic_mod: Optional[str] = None + geo_loc_name: Optional[str] = None + gravidity: Optional[str] = None + horizon_meth: Optional[str] = None + host_age: Optional[str] = None + host_body_habitat: Optional[str] = None + host_body_product: Optional[str] = None + host_body_site: Optional[str] = None + host_body_temp: Optional[str] = None + host_color: Optional[str] = None + host_common_name: Optional[str] = None + host_diet: Optional[str] = None + host_dry_mass: Optional[str] = None + host_family_relation: Optional[str] = None + host_genotype: Optional[str] = None + host_growth_cond: Optional[str] = None + host_height: Optional[str] = None + host_last_meal: Optional[str] = None + host_length: Optional[str] = None + host_life_stage: Optional[str] = None + host_phenotype: Optional[str] = None + host_sex: Optional[Union[str, "HostSexEnum"]] = None + host_shape: Optional[str] = None + host_subject_id: Optional[str] = None + host_subspecf_genlin: Optional[str] = None + host_substrate: Optional[str] = None + host_symbiont: Optional[str] = None + host_taxid: Optional[str] = None + host_tot_mass: Optional[str] = None + lat_lon: Optional[str] = None + misc_param: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + perturbation: Optional[str] = None + salinity: Optional[str] = None + samp_capt_status: Optional[Union[str, "SampCaptStatusEnum"]] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_dis_stage: Optional[Union[str, "SampDisStageEnum"]] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + size_frac: Optional[str] = None + specific_ecosystem: Optional[str] = None + temp: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.ances_data is not None and not isinstance(self.ances_data, str): + self.ances_data = str(self.ances_data) + + if self.biol_stat is not None and not isinstance(self.biol_stat, BiolStatEnum): + self.biol_stat = BiolStatEnum(self.biol_stat) + + if self.blood_press_diast is not None and not isinstance(self.blood_press_diast, str): + self.blood_press_diast = str(self.blood_press_diast) + + if self.blood_press_syst is not None and not isinstance(self.blood_press_syst, str): + self.blood_press_syst = str(self.blood_press_syst) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.genetic_mod is not None and not isinstance(self.genetic_mod, str): + self.genetic_mod = str(self.genetic_mod) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.gravidity is not None and not isinstance(self.gravidity, str): + self.gravidity = str(self.gravidity) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.host_age is not None and not isinstance(self.host_age, str): + self.host_age = str(self.host_age) + + if self.host_body_habitat is not None and not isinstance(self.host_body_habitat, str): + self.host_body_habitat = str(self.host_body_habitat) + + if self.host_body_product is not None and not isinstance(self.host_body_product, str): + self.host_body_product = str(self.host_body_product) + + if self.host_body_site is not None and not isinstance(self.host_body_site, str): + self.host_body_site = str(self.host_body_site) + + if self.host_body_temp is not None and not isinstance(self.host_body_temp, str): + self.host_body_temp = str(self.host_body_temp) + + if self.host_color is not None and not isinstance(self.host_color, str): + self.host_color = str(self.host_color) + + if self.host_common_name is not None and not isinstance(self.host_common_name, str): + self.host_common_name = str(self.host_common_name) + + if self.host_diet is not None and not isinstance(self.host_diet, str): + self.host_diet = str(self.host_diet) + + if self.host_dry_mass is not None and not isinstance(self.host_dry_mass, str): + self.host_dry_mass = str(self.host_dry_mass) + + if self.host_family_relation is not None and not isinstance(self.host_family_relation, str): + self.host_family_relation = str(self.host_family_relation) + + if self.host_genotype is not None and not isinstance(self.host_genotype, str): + self.host_genotype = str(self.host_genotype) + + if self.host_growth_cond is not None and not isinstance(self.host_growth_cond, str): + self.host_growth_cond = str(self.host_growth_cond) + + if self.host_height is not None and not isinstance(self.host_height, str): + self.host_height = str(self.host_height) + + if self.host_last_meal is not None and not isinstance(self.host_last_meal, str): + self.host_last_meal = str(self.host_last_meal) + + if self.host_length is not None and not isinstance(self.host_length, str): + self.host_length = str(self.host_length) + + if self.host_life_stage is not None and not isinstance(self.host_life_stage, str): + self.host_life_stage = str(self.host_life_stage) + + if self.host_phenotype is not None and not isinstance(self.host_phenotype, str): + self.host_phenotype = str(self.host_phenotype) + + if self.host_sex is not None and not isinstance(self.host_sex, HostSexEnum): + self.host_sex = HostSexEnum(self.host_sex) + + if self.host_shape is not None and not isinstance(self.host_shape, str): + self.host_shape = str(self.host_shape) + + if self.host_subject_id is not None and not isinstance(self.host_subject_id, str): + self.host_subject_id = str(self.host_subject_id) + + if self.host_subspecf_genlin is not None and not isinstance(self.host_subspecf_genlin, str): + self.host_subspecf_genlin = str(self.host_subspecf_genlin) + + if self.host_substrate is not None and not isinstance(self.host_substrate, str): + self.host_substrate = str(self.host_substrate) + + if self.host_symbiont is not None and not isinstance(self.host_symbiont, str): + self.host_symbiont = str(self.host_symbiont) + + if self.host_taxid is not None and not isinstance(self.host_taxid, str): + self.host_taxid = str(self.host_taxid) + + if self.host_tot_mass is not None and not isinstance(self.host_tot_mass, str): + self.host_tot_mass = str(self.host_tot_mass) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_capt_status is not None and not isinstance(self.samp_capt_status, SampCaptStatusEnum): + self.samp_capt_status = SampCaptStatusEnum(self.samp_capt_status) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_dis_stage is not None and not isinstance(self.samp_dis_stage, SampDisStageEnum): + self.samp_dis_stage = SampDisStageEnum(self.samp_dis_stage) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.ances_data is not None and not isinstance(self.ances_data, str): + self.ances_data = str(self.ances_data) + + if self.biol_stat is not None and not isinstance(self.biol_stat, BiolStatEnum): + self.biol_stat = BiolStatEnum(self.biol_stat) + + if self.blood_press_diast is not None and not isinstance(self.blood_press_diast, str): + self.blood_press_diast = str(self.blood_press_diast) + + if self.blood_press_syst is not None and not isinstance(self.blood_press_syst, str): + self.blood_press_syst = str(self.blood_press_syst) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.genetic_mod is not None and not isinstance(self.genetic_mod, str): + self.genetic_mod = str(self.genetic_mod) + + if self.gravidity is not None and not isinstance(self.gravidity, str): + self.gravidity = str(self.gravidity) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.host_age is not None and not isinstance(self.host_age, str): + self.host_age = str(self.host_age) + + if self.host_body_habitat is not None and not isinstance(self.host_body_habitat, str): + self.host_body_habitat = str(self.host_body_habitat) + + if self.host_body_product is not None and not isinstance(self.host_body_product, str): + self.host_body_product = str(self.host_body_product) + + if self.host_body_site is not None and not isinstance(self.host_body_site, str): + self.host_body_site = str(self.host_body_site) + + if self.host_body_temp is not None and not isinstance(self.host_body_temp, str): + self.host_body_temp = str(self.host_body_temp) + + if self.host_color is not None and not isinstance(self.host_color, str): + self.host_color = str(self.host_color) + + if self.host_common_name is not None and not isinstance(self.host_common_name, str): + self.host_common_name = str(self.host_common_name) + + if self.host_diet is not None and not isinstance(self.host_diet, str): + self.host_diet = str(self.host_diet) + + if self.host_dry_mass is not None and not isinstance(self.host_dry_mass, str): + self.host_dry_mass = str(self.host_dry_mass) + + if self.host_family_relation is not None and not isinstance(self.host_family_relation, str): + self.host_family_relation = str(self.host_family_relation) + + if self.host_genotype is not None and not isinstance(self.host_genotype, str): + self.host_genotype = str(self.host_genotype) + + if self.host_growth_cond is not None and not isinstance(self.host_growth_cond, str): + self.host_growth_cond = str(self.host_growth_cond) + + if self.host_height is not None and not isinstance(self.host_height, str): + self.host_height = str(self.host_height) + + if self.host_last_meal is not None and not isinstance(self.host_last_meal, str): + self.host_last_meal = str(self.host_last_meal) + + if self.host_length is not None and not isinstance(self.host_length, str): + self.host_length = str(self.host_length) + + if self.host_life_stage is not None and not isinstance(self.host_life_stage, str): + self.host_life_stage = str(self.host_life_stage) + + if self.host_phenotype is not None and not isinstance(self.host_phenotype, str): + self.host_phenotype = str(self.host_phenotype) + + if self.host_sex is not None and not isinstance(self.host_sex, HostSexEnum): + self.host_sex = HostSexEnum(self.host_sex) + + if self.host_shape is not None and not isinstance(self.host_shape, str): + self.host_shape = str(self.host_shape) + + if self.host_subject_id is not None and not isinstance(self.host_subject_id, str): + self.host_subject_id = str(self.host_subject_id) + + if self.host_subspecf_genlin is not None and not isinstance(self.host_subspecf_genlin, str): + self.host_subspecf_genlin = str(self.host_subspecf_genlin) + + if self.host_substrate is not None and not isinstance(self.host_substrate, str): + self.host_substrate = str(self.host_substrate) + + if self.host_symbiont is not None and not isinstance(self.host_symbiont, str): + self.host_symbiont = str(self.host_symbiont) + + if self.host_taxid is not None and not isinstance(self.host_taxid, str): + self.host_taxid = str(self.host_taxid) + + if self.host_tot_mass is not None and not isinstance(self.host_tot_mass, str): + self.host_tot_mass = str(self.host_tot_mass) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_capt_status is not None and not isinstance(self.samp_capt_status, SampCaptStatusEnum): + self.samp_capt_status = SampCaptStatusEnum(self.samp_capt_status) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_dis_stage is not None and not isinstance(self.samp_dis_stage, SampDisStageEnum): + self.samp_dis_stage = SampDisStageEnum(self.samp_dis_stage) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class JgiMgInterface(DhInterface): + """ + jgi_mg dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.JgiMgInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:JgiMgInterface" + class_name: ClassVar[str] = "JgiMgInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.JgiMgInterface + + dna_concentration: float = None + dna_cont_type: Union[str, "JgiContTypeEnum"] = None + dna_container_id: str = None + dna_dnase: Union[str, "YesNoEnum"] = None + dna_isolate_meth: str = None + dna_project_contact: str = None + dna_samp_id: str = None + dna_sample_format: Union[str, "DnaSampleFormatEnum"] = None + dna_sample_name: str = None + dna_seq_project: str = None + dna_seq_project_name: str = None + dna_seq_project_pi: str = None + dna_volume: float = None + proposal_dna: str = None + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + dna_absorb1: Optional[float] = None + dna_absorb2: Optional[float] = None + dna_cont_well: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.dna_concentration): + self.MissingRequiredField("dna_concentration") + if not isinstance(self.dna_concentration, float): + self.dna_concentration = float(self.dna_concentration) + + if self._is_empty(self.dna_cont_type): + self.MissingRequiredField("dna_cont_type") + if not isinstance(self.dna_cont_type, JgiContTypeEnum): + self.dna_cont_type = JgiContTypeEnum(self.dna_cont_type) + + if self._is_empty(self.dna_container_id): + self.MissingRequiredField("dna_container_id") + if not isinstance(self.dna_container_id, str): + self.dna_container_id = str(self.dna_container_id) + + if self._is_empty(self.dna_dnase): + self.MissingRequiredField("dna_dnase") + if not isinstance(self.dna_dnase, YesNoEnum): + self.dna_dnase = YesNoEnum(self.dna_dnase) + + if self._is_empty(self.dna_isolate_meth): + self.MissingRequiredField("dna_isolate_meth") + if not isinstance(self.dna_isolate_meth, str): + self.dna_isolate_meth = str(self.dna_isolate_meth) + + if self._is_empty(self.dna_project_contact): + self.MissingRequiredField("dna_project_contact") + if not isinstance(self.dna_project_contact, str): + self.dna_project_contact = str(self.dna_project_contact) + + if self._is_empty(self.dna_samp_id): + self.MissingRequiredField("dna_samp_id") + if not isinstance(self.dna_samp_id, str): + self.dna_samp_id = str(self.dna_samp_id) + + if self._is_empty(self.dna_sample_format): + self.MissingRequiredField("dna_sample_format") + if not isinstance(self.dna_sample_format, DnaSampleFormatEnum): + self.dna_sample_format = DnaSampleFormatEnum(self.dna_sample_format) + + if self._is_empty(self.dna_sample_name): + self.MissingRequiredField("dna_sample_name") + if not isinstance(self.dna_sample_name, str): + self.dna_sample_name = str(self.dna_sample_name) + + if self._is_empty(self.dna_seq_project): + self.MissingRequiredField("dna_seq_project") + if not isinstance(self.dna_seq_project, str): + self.dna_seq_project = str(self.dna_seq_project) + + if self._is_empty(self.dna_seq_project_name): + self.MissingRequiredField("dna_seq_project_name") + if not isinstance(self.dna_seq_project_name, str): + self.dna_seq_project_name = str(self.dna_seq_project_name) + + if self._is_empty(self.dna_seq_project_pi): + self.MissingRequiredField("dna_seq_project_pi") + if not isinstance(self.dna_seq_project_pi, str): + self.dna_seq_project_pi = str(self.dna_seq_project_pi) + + if self._is_empty(self.dna_volume): + self.MissingRequiredField("dna_volume") + if not isinstance(self.dna_volume, float): + self.dna_volume = float(self.dna_volume) + + if self._is_empty(self.proposal_dna): + self.MissingRequiredField("proposal_dna") + if not isinstance(self.proposal_dna, str): + self.proposal_dna = str(self.proposal_dna) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.dna_absorb1 is not None and not isinstance(self.dna_absorb1, float): + self.dna_absorb1 = float(self.dna_absorb1) + + if self.dna_absorb2 is not None and not isinstance(self.dna_absorb2, float): + self.dna_absorb2 = float(self.dna_absorb2) + + if self.dna_cont_well is not None and not isinstance(self.dna_cont_well, str): + self.dna_cont_well = str(self.dna_cont_well) + + if self.dna_absorb1 is not None and not isinstance(self.dna_absorb1, float): + self.dna_absorb1 = float(self.dna_absorb1) + + if self.dna_absorb2 is not None and not isinstance(self.dna_absorb2, float): + self.dna_absorb2 = float(self.dna_absorb2) + + if self.dna_concentration is not None and not isinstance(self.dna_concentration, float): + self.dna_concentration = float(self.dna_concentration) + + if self.dna_cont_type is not None and not isinstance(self.dna_cont_type, JgiContTypeEnum): + self.dna_cont_type = JgiContTypeEnum(self.dna_cont_type) + + if self.dna_cont_well is not None and not isinstance(self.dna_cont_well, str): + self.dna_cont_well = str(self.dna_cont_well) + + if self.dna_container_id is not None and not isinstance(self.dna_container_id, str): + self.dna_container_id = str(self.dna_container_id) + + if self.dna_dnase is not None and not isinstance(self.dna_dnase, YesNoEnum): + self.dna_dnase = YesNoEnum(self.dna_dnase) + + if self.dna_isolate_meth is not None and not isinstance(self.dna_isolate_meth, str): + self.dna_isolate_meth = str(self.dna_isolate_meth) + + if self.dna_project_contact is not None and not isinstance(self.dna_project_contact, str): + self.dna_project_contact = str(self.dna_project_contact) + + if self.dna_samp_id is not None and not isinstance(self.dna_samp_id, str): + self.dna_samp_id = str(self.dna_samp_id) + + if self.dna_sample_format is not None and not isinstance(self.dna_sample_format, DnaSampleFormatEnum): + self.dna_sample_format = DnaSampleFormatEnum(self.dna_sample_format) + + if self.dna_sample_name is not None and not isinstance(self.dna_sample_name, str): + self.dna_sample_name = str(self.dna_sample_name) + + if self.dna_seq_project is not None and not isinstance(self.dna_seq_project, str): + self.dna_seq_project = str(self.dna_seq_project) + + if self.dna_seq_project_name is not None and not isinstance(self.dna_seq_project_name, str): + self.dna_seq_project_name = str(self.dna_seq_project_name) + + if self.dna_seq_project_pi is not None and not isinstance(self.dna_seq_project_pi, str): + self.dna_seq_project_pi = str(self.dna_seq_project_pi) + + if self.dna_volume is not None and not isinstance(self.dna_volume, float): + self.dna_volume = float(self.dna_volume) + + if self.proposal_dna is not None and not isinstance(self.proposal_dna, str): + self.proposal_dna = str(self.proposal_dna) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class JgiMtInterface(DhInterface): + """ + jgi_mt dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.JgiMtInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:JgiMtInterface" + class_name: ClassVar[str] = "JgiMtInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.JgiMtInterface + + dnase_rna: Union[str, "YesNoEnum"] = None + proposal_rna: str = None + rna_concentration: float = None + rna_cont_type: Union[str, "JgiContTypeEnum"] = None + rna_container_id: str = None + rna_isolate_meth: str = None + rna_project_contact: str = None + rna_samp_id: str = None + rna_sample_format: Union[str, "RnaSampleFormatEnum"] = None + rna_sample_name: str = None + rna_seq_project: str = None + rna_seq_project_name: str = None + rna_seq_project_pi: str = None + rna_volume: float = None + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + rna_absorb1: Optional[float] = None + rna_absorb2: Optional[float] = None + rna_cont_well: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.dnase_rna): + self.MissingRequiredField("dnase_rna") + if not isinstance(self.dnase_rna, YesNoEnum): + self.dnase_rna = YesNoEnum(self.dnase_rna) + + if self._is_empty(self.proposal_rna): + self.MissingRequiredField("proposal_rna") + if not isinstance(self.proposal_rna, str): + self.proposal_rna = str(self.proposal_rna) + + if self._is_empty(self.rna_concentration): + self.MissingRequiredField("rna_concentration") + if not isinstance(self.rna_concentration, float): + self.rna_concentration = float(self.rna_concentration) + + if self._is_empty(self.rna_cont_type): + self.MissingRequiredField("rna_cont_type") + if not isinstance(self.rna_cont_type, JgiContTypeEnum): + self.rna_cont_type = JgiContTypeEnum(self.rna_cont_type) + + if self._is_empty(self.rna_container_id): + self.MissingRequiredField("rna_container_id") + if not isinstance(self.rna_container_id, str): + self.rna_container_id = str(self.rna_container_id) + + if self._is_empty(self.rna_isolate_meth): + self.MissingRequiredField("rna_isolate_meth") + if not isinstance(self.rna_isolate_meth, str): + self.rna_isolate_meth = str(self.rna_isolate_meth) + + if self._is_empty(self.rna_project_contact): + self.MissingRequiredField("rna_project_contact") + if not isinstance(self.rna_project_contact, str): + self.rna_project_contact = str(self.rna_project_contact) + + if self._is_empty(self.rna_samp_id): + self.MissingRequiredField("rna_samp_id") + if not isinstance(self.rna_samp_id, str): + self.rna_samp_id = str(self.rna_samp_id) + + if self._is_empty(self.rna_sample_format): + self.MissingRequiredField("rna_sample_format") + if not isinstance(self.rna_sample_format, RnaSampleFormatEnum): + self.rna_sample_format = RnaSampleFormatEnum(self.rna_sample_format) + + if self._is_empty(self.rna_sample_name): + self.MissingRequiredField("rna_sample_name") + if not isinstance(self.rna_sample_name, str): + self.rna_sample_name = str(self.rna_sample_name) + + if self._is_empty(self.rna_seq_project): + self.MissingRequiredField("rna_seq_project") + if not isinstance(self.rna_seq_project, str): + self.rna_seq_project = str(self.rna_seq_project) + + if self._is_empty(self.rna_seq_project_name): + self.MissingRequiredField("rna_seq_project_name") + if not isinstance(self.rna_seq_project_name, str): + self.rna_seq_project_name = str(self.rna_seq_project_name) + + if self._is_empty(self.rna_seq_project_pi): + self.MissingRequiredField("rna_seq_project_pi") + if not isinstance(self.rna_seq_project_pi, str): + self.rna_seq_project_pi = str(self.rna_seq_project_pi) + + if self._is_empty(self.rna_volume): + self.MissingRequiredField("rna_volume") + if not isinstance(self.rna_volume, float): + self.rna_volume = float(self.rna_volume) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.rna_absorb1 is not None and not isinstance(self.rna_absorb1, float): + self.rna_absorb1 = float(self.rna_absorb1) + + if self.rna_absorb2 is not None and not isinstance(self.rna_absorb2, float): + self.rna_absorb2 = float(self.rna_absorb2) + + if self.rna_cont_well is not None and not isinstance(self.rna_cont_well, str): + self.rna_cont_well = str(self.rna_cont_well) + + if self.dnase_rna is not None and not isinstance(self.dnase_rna, YesNoEnum): + self.dnase_rna = YesNoEnum(self.dnase_rna) + + if self.proposal_rna is not None and not isinstance(self.proposal_rna, str): + self.proposal_rna = str(self.proposal_rna) + + if self.rna_absorb1 is not None and not isinstance(self.rna_absorb1, float): + self.rna_absorb1 = float(self.rna_absorb1) + + if self.rna_absorb2 is not None and not isinstance(self.rna_absorb2, float): + self.rna_absorb2 = float(self.rna_absorb2) + + if self.rna_concentration is not None and not isinstance(self.rna_concentration, float): + self.rna_concentration = float(self.rna_concentration) + + if self.rna_cont_type is not None and not isinstance(self.rna_cont_type, JgiContTypeEnum): + self.rna_cont_type = JgiContTypeEnum(self.rna_cont_type) + + if self.rna_cont_well is not None and not isinstance(self.rna_cont_well, str): + self.rna_cont_well = str(self.rna_cont_well) + + if self.rna_container_id is not None and not isinstance(self.rna_container_id, str): + self.rna_container_id = str(self.rna_container_id) + + if self.rna_isolate_meth is not None and not isinstance(self.rna_isolate_meth, str): + self.rna_isolate_meth = str(self.rna_isolate_meth) + + if self.rna_project_contact is not None and not isinstance(self.rna_project_contact, str): + self.rna_project_contact = str(self.rna_project_contact) + + if self.rna_samp_id is not None and not isinstance(self.rna_samp_id, str): + self.rna_samp_id = str(self.rna_samp_id) + + if self.rna_sample_format is not None and not isinstance(self.rna_sample_format, RnaSampleFormatEnum): + self.rna_sample_format = RnaSampleFormatEnum(self.rna_sample_format) + + if self.rna_sample_name is not None and not isinstance(self.rna_sample_name, str): + self.rna_sample_name = str(self.rna_sample_name) + + if self.rna_seq_project is not None and not isinstance(self.rna_seq_project, str): + self.rna_seq_project = str(self.rna_seq_project) + + if self.rna_seq_project_name is not None and not isinstance(self.rna_seq_project_name, str): + self.rna_seq_project_name = str(self.rna_seq_project_name) + + if self.rna_seq_project_pi is not None and not isinstance(self.rna_seq_project_pi, str): + self.rna_seq_project_pi = str(self.rna_seq_project_pi) + + if self.rna_volume is not None and not isinstance(self.rna_volume, float): + self.rna_volume = float(self.rna_volume) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class MiscEnvsInterface(DhInterface): + """ + misc_envs dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.MiscEnvsInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:MiscEnvsInterface" + class_name: ClassVar[str] = "MiscEnvsInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.MiscEnvsInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alkalinity: Optional[str] = None + alt: Optional[str] = None + ammonium: Optional[str] = None + biomass: Optional[str] = None + bromide: Optional[str] = None + calcium: Optional[str] = None + chem_administration: Optional[str] = None + chloride: Optional[str] = None + chlorophyll: Optional[str] = None + collection_date: Optional[str] = None + density: Optional[str] = None + depth: Optional[str] = None + diether_lipids: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_hydrogen: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_org_nitro: Optional[str] = None + diss_oxygen: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + geo_loc_name: Optional[str] = None + horizon_meth: Optional[str] = None + lat_lon: Optional[str] = None + misc_param: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + nitro: Optional[str] = None + org_carb: Optional[str] = None + org_matter: Optional[str] = None + org_nitro: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + perturbation: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phosphate: Optional[str] = None + phosplipid_fatt_acid: Optional[str] = None + potassium: Optional[str] = None + pressure: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + silicate: Optional[str] = None + size_frac: Optional[str] = None + sodium: Optional[str] = None + specific_ecosystem: Optional[str] = None + sulfate: Optional[str] = None + sulfide: Optional[str] = None + temp: Optional[str] = None + water_current: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.water_current is not None and not isinstance(self.water_current, str): + self.water_current = str(self.water_current) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alt is not None and not isinstance(self.alt, str): + self.alt = str(self.alt) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.water_current is not None and not isinstance(self.water_current, str): + self.water_current = str(self.water_current) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class PlantAssociatedInterface(DhInterface): + """ + plant_associated dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.PlantAssociatedInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:PlantAssociatedInterface" + class_name: ClassVar[str] = "PlantAssociatedInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.PlantAssociatedInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + air_temp_regm: Optional[str] = None + ances_data: Optional[str] = None + antibiotic_regm: Optional[str] = None + biol_stat: Optional[Union[str, "BiolStatEnum"]] = None + biotic_regm: Optional[str] = None + chem_administration: Optional[str] = None + chem_mutagen: Optional[str] = None + climate_environment: Optional[str] = None + collection_date: Optional[str] = None + cult_root_med: Optional[str] = None + depth: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + fertilizer_regm: Optional[str] = None + fungicide_regm: Optional[str] = None + gaseous_environment: Optional[str] = None + genetic_mod: Optional[str] = None + geo_loc_name: Optional[str] = None + gravity: Optional[str] = None + growth_facil: Optional[str] = None + growth_habit: Optional[Union[str, "GrowthHabitEnum"]] = None + growth_hormone_regm: Optional[str] = None + herbicide_regm: Optional[str] = None + horizon_meth: Optional[str] = None + host_age: Optional[str] = None + host_common_name: Optional[str] = None + host_dry_mass: Optional[str] = None + host_genotype: Optional[str] = None + host_height: Optional[str] = None + host_length: Optional[str] = None + host_life_stage: Optional[str] = None + host_phenotype: Optional[str] = None + host_subspecf_genlin: Optional[str] = None + host_symbiont: Optional[str] = None + host_taxid: Optional[str] = None + host_tot_mass: Optional[str] = None + host_wet_mass: Optional[str] = None + humidity_regm: Optional[str] = None + lat_lon: Optional[str] = None + light_regm: Optional[str] = None + mechanical_damage: Optional[str] = None + mineral_nutr_regm: Optional[str] = None + misc_param: Optional[str] = None + non_min_nutr_regm: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + perturbation: Optional[str] = None + pesticide_regm: Optional[str] = None + ph_regm: Optional[str] = None + plant_growth_med: Optional[str] = None + plant_product: Optional[str] = None + plant_sex: Optional[Union[str, "PlantSexEnum"]] = None + plant_struc: Optional[str] = None + radiation_regm: Optional[str] = None + rainfall_regm: Optional[str] = None + root_cond: Optional[str] = None + root_med_carbon: Optional[str] = None + root_med_macronutr: Optional[str] = None + root_med_micronutr: Optional[str] = None + root_med_ph: Optional[str] = None + root_med_regl: Optional[str] = None + root_med_solid: Optional[str] = None + root_med_suppl: Optional[str] = None + salinity: Optional[str] = None + salt_regm: Optional[str] = None + samp_capt_status: Optional[Union[str, "SampCaptStatusEnum"]] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_dis_stage: Optional[Union[str, "SampDisStageEnum"]] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + season_environment: Optional[str] = None + size_frac: Optional[str] = None + specific_ecosystem: Optional[str] = None + standing_water_regm: Optional[str] = None + temp: Optional[str] = None + tiss_cult_growth_med: Optional[str] = None + water_temp_regm: Optional[str] = None + watering_regm: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.growth_facil): + self.MissingRequiredField("growth_facil") + if not isinstance(self.growth_facil, GrowthFacilEnum): + self.growth_facil = GrowthFacilEnum(self.growth_facil) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.air_temp_regm is not None and not isinstance(self.air_temp_regm, str): + self.air_temp_regm = str(self.air_temp_regm) + + if self.ances_data is not None and not isinstance(self.ances_data, str): + self.ances_data = str(self.ances_data) + + if self.antibiotic_regm is not None and not isinstance(self.antibiotic_regm, str): + self.antibiotic_regm = str(self.antibiotic_regm) + + if self.biol_stat is not None and not isinstance(self.biol_stat, BiolStatEnum): + self.biol_stat = BiolStatEnum(self.biol_stat) + + if self.biotic_regm is not None and not isinstance(self.biotic_regm, str): + self.biotic_regm = str(self.biotic_regm) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_mutagen is not None and not isinstance(self.chem_mutagen, str): + self.chem_mutagen = str(self.chem_mutagen) + + if self.climate_environment is not None and not isinstance(self.climate_environment, str): + self.climate_environment = str(self.climate_environment) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.cult_root_med is not None and not isinstance(self.cult_root_med, str): + self.cult_root_med = str(self.cult_root_med) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.fertilizer_regm is not None and not isinstance(self.fertilizer_regm, str): + self.fertilizer_regm = str(self.fertilizer_regm) + + if self.fungicide_regm is not None and not isinstance(self.fungicide_regm, str): + self.fungicide_regm = str(self.fungicide_regm) + + if self.gaseous_environment is not None and not isinstance(self.gaseous_environment, str): + self.gaseous_environment = str(self.gaseous_environment) + + if self.genetic_mod is not None and not isinstance(self.genetic_mod, str): + self.genetic_mod = str(self.genetic_mod) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.gravity is not None and not isinstance(self.gravity, str): + self.gravity = str(self.gravity) + + if self.growth_facil is not None and not isinstance(self.growth_facil, str): + self.growth_facil = str(self.growth_facil) + + if self.growth_habit is not None and not isinstance(self.growth_habit, GrowthHabitEnum): + self.growth_habit = GrowthHabitEnum(self.growth_habit) + + if self.growth_hormone_regm is not None and not isinstance(self.growth_hormone_regm, str): + self.growth_hormone_regm = str(self.growth_hormone_regm) + + if self.herbicide_regm is not None and not isinstance(self.herbicide_regm, str): + self.herbicide_regm = str(self.herbicide_regm) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.host_age is not None and not isinstance(self.host_age, str): + self.host_age = str(self.host_age) + + if self.host_common_name is not None and not isinstance(self.host_common_name, str): + self.host_common_name = str(self.host_common_name) + + if self.host_dry_mass is not None and not isinstance(self.host_dry_mass, str): + self.host_dry_mass = str(self.host_dry_mass) + + if self.host_genotype is not None and not isinstance(self.host_genotype, str): + self.host_genotype = str(self.host_genotype) + + if self.host_height is not None and not isinstance(self.host_height, str): + self.host_height = str(self.host_height) + + if self.host_length is not None and not isinstance(self.host_length, str): + self.host_length = str(self.host_length) + + if self.host_life_stage is not None and not isinstance(self.host_life_stage, str): + self.host_life_stage = str(self.host_life_stage) + + if self.host_phenotype is not None and not isinstance(self.host_phenotype, str): + self.host_phenotype = str(self.host_phenotype) + + if self.host_subspecf_genlin is not None and not isinstance(self.host_subspecf_genlin, str): + self.host_subspecf_genlin = str(self.host_subspecf_genlin) + + if self.host_symbiont is not None and not isinstance(self.host_symbiont, str): + self.host_symbiont = str(self.host_symbiont) + + if self.host_taxid is not None and not isinstance(self.host_taxid, str): + self.host_taxid = str(self.host_taxid) + + if self.host_tot_mass is not None and not isinstance(self.host_tot_mass, str): + self.host_tot_mass = str(self.host_tot_mass) + + if self.host_wet_mass is not None and not isinstance(self.host_wet_mass, str): + self.host_wet_mass = str(self.host_wet_mass) + + if self.humidity_regm is not None and not isinstance(self.humidity_regm, str): + self.humidity_regm = str(self.humidity_regm) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.light_regm is not None and not isinstance(self.light_regm, str): + self.light_regm = str(self.light_regm) + + if self.mechanical_damage is not None and not isinstance(self.mechanical_damage, str): + self.mechanical_damage = str(self.mechanical_damage) + + if self.mineral_nutr_regm is not None and not isinstance(self.mineral_nutr_regm, str): + self.mineral_nutr_regm = str(self.mineral_nutr_regm) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.non_min_nutr_regm is not None and not isinstance(self.non_min_nutr_regm, str): + self.non_min_nutr_regm = str(self.non_min_nutr_regm) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.pesticide_regm is not None and not isinstance(self.pesticide_regm, str): + self.pesticide_regm = str(self.pesticide_regm) + + if self.ph_regm is not None and not isinstance(self.ph_regm, str): + self.ph_regm = str(self.ph_regm) + + if self.plant_growth_med is not None and not isinstance(self.plant_growth_med, str): + self.plant_growth_med = str(self.plant_growth_med) + + if self.plant_product is not None and not isinstance(self.plant_product, str): + self.plant_product = str(self.plant_product) + + if self.plant_sex is not None and not isinstance(self.plant_sex, PlantSexEnum): + self.plant_sex = PlantSexEnum(self.plant_sex) + + if self.plant_struc is not None and not isinstance(self.plant_struc, str): + self.plant_struc = str(self.plant_struc) + + if self.radiation_regm is not None and not isinstance(self.radiation_regm, str): + self.radiation_regm = str(self.radiation_regm) + + if self.rainfall_regm is not None and not isinstance(self.rainfall_regm, str): + self.rainfall_regm = str(self.rainfall_regm) + + if self.root_cond is not None and not isinstance(self.root_cond, str): + self.root_cond = str(self.root_cond) + + if self.root_med_carbon is not None and not isinstance(self.root_med_carbon, str): + self.root_med_carbon = str(self.root_med_carbon) + + if self.root_med_macronutr is not None and not isinstance(self.root_med_macronutr, str): + self.root_med_macronutr = str(self.root_med_macronutr) + + if self.root_med_micronutr is not None and not isinstance(self.root_med_micronutr, str): + self.root_med_micronutr = str(self.root_med_micronutr) + + if self.root_med_ph is not None and not isinstance(self.root_med_ph, str): + self.root_med_ph = str(self.root_med_ph) + + if self.root_med_regl is not None and not isinstance(self.root_med_regl, str): + self.root_med_regl = str(self.root_med_regl) + + if self.root_med_solid is not None and not isinstance(self.root_med_solid, str): + self.root_med_solid = str(self.root_med_solid) + + if self.root_med_suppl is not None and not isinstance(self.root_med_suppl, str): + self.root_med_suppl = str(self.root_med_suppl) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.salt_regm is not None and not isinstance(self.salt_regm, str): + self.salt_regm = str(self.salt_regm) + + if self.samp_capt_status is not None and not isinstance(self.samp_capt_status, SampCaptStatusEnum): + self.samp_capt_status = SampCaptStatusEnum(self.samp_capt_status) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_dis_stage is not None and not isinstance(self.samp_dis_stage, SampDisStageEnum): + self.samp_dis_stage = SampDisStageEnum(self.samp_dis_stage) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.season_environment is not None and not isinstance(self.season_environment, str): + self.season_environment = str(self.season_environment) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.standing_water_regm is not None and not isinstance(self.standing_water_regm, str): + self.standing_water_regm = str(self.standing_water_regm) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tiss_cult_growth_med is not None and not isinstance(self.tiss_cult_growth_med, str): + self.tiss_cult_growth_med = str(self.tiss_cult_growth_med) + + if self.water_temp_regm is not None and not isinstance(self.water_temp_regm, str): + self.water_temp_regm = str(self.water_temp_regm) + + if self.watering_regm is not None and not isinstance(self.watering_regm, str): + self.watering_regm = str(self.watering_regm) + + if self.air_temp_regm is not None and not isinstance(self.air_temp_regm, str): + self.air_temp_regm = str(self.air_temp_regm) + + if self.ances_data is not None and not isinstance(self.ances_data, str): + self.ances_data = str(self.ances_data) + + if self.antibiotic_regm is not None and not isinstance(self.antibiotic_regm, str): + self.antibiotic_regm = str(self.antibiotic_regm) + + if self.biol_stat is not None and not isinstance(self.biol_stat, BiolStatEnum): + self.biol_stat = BiolStatEnum(self.biol_stat) + + if self.biotic_regm is not None and not isinstance(self.biotic_regm, str): + self.biotic_regm = str(self.biotic_regm) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_mutagen is not None and not isinstance(self.chem_mutagen, str): + self.chem_mutagen = str(self.chem_mutagen) + + if self.climate_environment is not None and not isinstance(self.climate_environment, str): + self.climate_environment = str(self.climate_environment) + + if self.cult_root_med is not None and not isinstance(self.cult_root_med, str): + self.cult_root_med = str(self.cult_root_med) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.fertilizer_regm is not None and not isinstance(self.fertilizer_regm, str): + self.fertilizer_regm = str(self.fertilizer_regm) + + if self.fungicide_regm is not None and not isinstance(self.fungicide_regm, str): + self.fungicide_regm = str(self.fungicide_regm) + + if self.gaseous_environment is not None and not isinstance(self.gaseous_environment, str): + self.gaseous_environment = str(self.gaseous_environment) + + if self.genetic_mod is not None and not isinstance(self.genetic_mod, str): + self.genetic_mod = str(self.genetic_mod) + + if self.gravity is not None and not isinstance(self.gravity, str): + self.gravity = str(self.gravity) + + if self.growth_habit is not None and not isinstance(self.growth_habit, GrowthHabitEnum): + self.growth_habit = GrowthHabitEnum(self.growth_habit) + + if self.growth_hormone_regm is not None and not isinstance(self.growth_hormone_regm, str): + self.growth_hormone_regm = str(self.growth_hormone_regm) + + if self.herbicide_regm is not None and not isinstance(self.herbicide_regm, str): + self.herbicide_regm = str(self.herbicide_regm) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.host_age is not None and not isinstance(self.host_age, str): + self.host_age = str(self.host_age) + + if self.host_common_name is not None and not isinstance(self.host_common_name, str): + self.host_common_name = str(self.host_common_name) + + if self.host_dry_mass is not None and not isinstance(self.host_dry_mass, str): + self.host_dry_mass = str(self.host_dry_mass) + + if self.host_genotype is not None and not isinstance(self.host_genotype, str): + self.host_genotype = str(self.host_genotype) + + if self.host_height is not None and not isinstance(self.host_height, str): + self.host_height = str(self.host_height) + + if self.host_length is not None and not isinstance(self.host_length, str): + self.host_length = str(self.host_length) + + if self.host_life_stage is not None and not isinstance(self.host_life_stage, str): + self.host_life_stage = str(self.host_life_stage) + + if self.host_phenotype is not None and not isinstance(self.host_phenotype, str): + self.host_phenotype = str(self.host_phenotype) + + if self.host_subspecf_genlin is not None and not isinstance(self.host_subspecf_genlin, str): + self.host_subspecf_genlin = str(self.host_subspecf_genlin) + + if self.host_symbiont is not None and not isinstance(self.host_symbiont, str): + self.host_symbiont = str(self.host_symbiont) + + if self.host_taxid is not None and not isinstance(self.host_taxid, str): + self.host_taxid = str(self.host_taxid) + + if self.host_tot_mass is not None and not isinstance(self.host_tot_mass, str): + self.host_tot_mass = str(self.host_tot_mass) + + if self.host_wet_mass is not None and not isinstance(self.host_wet_mass, str): + self.host_wet_mass = str(self.host_wet_mass) + + if self.humidity_regm is not None and not isinstance(self.humidity_regm, str): + self.humidity_regm = str(self.humidity_regm) + + if self.light_regm is not None and not isinstance(self.light_regm, str): + self.light_regm = str(self.light_regm) + + if self.mechanical_damage is not None and not isinstance(self.mechanical_damage, str): + self.mechanical_damage = str(self.mechanical_damage) + + if self.mineral_nutr_regm is not None and not isinstance(self.mineral_nutr_regm, str): + self.mineral_nutr_regm = str(self.mineral_nutr_regm) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.non_min_nutr_regm is not None and not isinstance(self.non_min_nutr_regm, str): + self.non_min_nutr_regm = str(self.non_min_nutr_regm) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.pesticide_regm is not None and not isinstance(self.pesticide_regm, str): + self.pesticide_regm = str(self.pesticide_regm) + + if self.ph_regm is not None and not isinstance(self.ph_regm, str): + self.ph_regm = str(self.ph_regm) + + if self.plant_growth_med is not None and not isinstance(self.plant_growth_med, str): + self.plant_growth_med = str(self.plant_growth_med) + + if self.plant_product is not None and not isinstance(self.plant_product, str): + self.plant_product = str(self.plant_product) + + if self.plant_sex is not None and not isinstance(self.plant_sex, PlantSexEnum): + self.plant_sex = PlantSexEnum(self.plant_sex) + + if self.plant_struc is not None and not isinstance(self.plant_struc, str): + self.plant_struc = str(self.plant_struc) + + if self.radiation_regm is not None and not isinstance(self.radiation_regm, str): + self.radiation_regm = str(self.radiation_regm) + + if self.rainfall_regm is not None and not isinstance(self.rainfall_regm, str): + self.rainfall_regm = str(self.rainfall_regm) + + if self.root_cond is not None and not isinstance(self.root_cond, str): + self.root_cond = str(self.root_cond) + + if self.root_med_carbon is not None and not isinstance(self.root_med_carbon, str): + self.root_med_carbon = str(self.root_med_carbon) + + if self.root_med_macronutr is not None and not isinstance(self.root_med_macronutr, str): + self.root_med_macronutr = str(self.root_med_macronutr) + + if self.root_med_micronutr is not None and not isinstance(self.root_med_micronutr, str): + self.root_med_micronutr = str(self.root_med_micronutr) + + if self.root_med_ph is not None and not isinstance(self.root_med_ph, str): + self.root_med_ph = str(self.root_med_ph) + + if self.root_med_regl is not None and not isinstance(self.root_med_regl, str): + self.root_med_regl = str(self.root_med_regl) + + if self.root_med_solid is not None and not isinstance(self.root_med_solid, str): + self.root_med_solid = str(self.root_med_solid) + + if self.root_med_suppl is not None and not isinstance(self.root_med_suppl, str): + self.root_med_suppl = str(self.root_med_suppl) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.salt_regm is not None and not isinstance(self.salt_regm, str): + self.salt_regm = str(self.salt_regm) + + if self.samp_capt_status is not None and not isinstance(self.samp_capt_status, SampCaptStatusEnum): + self.samp_capt_status = SampCaptStatusEnum(self.samp_capt_status) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_dis_stage is not None and not isinstance(self.samp_dis_stage, SampDisStageEnum): + self.samp_dis_stage = SampDisStageEnum(self.samp_dis_stage) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.season_environment is not None and not isinstance(self.season_environment, str): + self.season_environment = str(self.season_environment) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.standing_water_regm is not None and not isinstance(self.standing_water_regm, str): + self.standing_water_regm = str(self.standing_water_regm) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tiss_cult_growth_med is not None and not isinstance(self.tiss_cult_growth_med, str): + self.tiss_cult_growth_med = str(self.tiss_cult_growth_med) + + if self.water_temp_regm is not None and not isinstance(self.water_temp_regm, str): + self.water_temp_regm = str(self.water_temp_regm) + + if self.watering_regm is not None and not isinstance(self.watering_regm, str): + self.watering_regm = str(self.watering_regm) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class SedimentInterface(DhInterface): + """ + sediment dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SedimentInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:SedimentInterface" + class_name: ClassVar[str] = "SedimentInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SedimentInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alkalinity: Optional[str] = None + alkyl_diethers: Optional[str] = None + aminopept_act: Optional[str] = None + ammonium: Optional[str] = None + bacteria_carb_prod: Optional[str] = None + biomass: Optional[str] = None + bishomohopanol: Optional[str] = None + bromide: Optional[str] = None + calcium: Optional[str] = None + carb_nitro_ratio: Optional[str] = None + chem_administration: Optional[str] = None + chloride: Optional[str] = None + chlorophyll: Optional[str] = None + collection_date: Optional[str] = None + density: Optional[str] = None + depth: Optional[str] = None + diether_lipids: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_hydrogen: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_org_carb: Optional[str] = None + diss_org_nitro: Optional[str] = None + diss_oxygen: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + geo_loc_name: Optional[str] = None + glucosidase_act: Optional[str] = None + horizon_meth: Optional[str] = None + lat_lon: Optional[str] = None + magnesium: Optional[str] = None + mean_frict_vel: Optional[str] = None + mean_peak_frict_vel: Optional[str] = None + methane: Optional[str] = None + misc_param: Optional[str] = None + n_alkanes: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + nitro: Optional[str] = None + org_carb: Optional[str] = None + org_matter: Optional[str] = None + org_nitro: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + part_org_carb: Optional[str] = None + particle_class: Optional[str] = None + perturbation: Optional[str] = None + petroleum_hydrocarb: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phaeopigments: Optional[str] = None + phosphate: Optional[str] = None + phosplipid_fatt_acid: Optional[str] = None + porosity: Optional[str] = None + potassium: Optional[str] = None + pressure: Optional[str] = None + redox_potential: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + sediment_type: Optional[Union[str, "SedimentTypeEnum"]] = None + silicate: Optional[str] = None + size_frac: Optional[str] = None + sodium: Optional[str] = None + specific_ecosystem: Optional[str] = None + sulfate: Optional[str] = None + sulfide: Optional[str] = None + temp: Optional[str] = None + tidal_stage: Optional[Union[str, "TidalStageEnum"]] = None + tot_carb: Optional[str] = None + tot_depth_water_col: Optional[str] = None + tot_nitro_content: Optional[str] = None + tot_org_carb: Optional[str] = None + turbidity: Optional[str] = None + water_content: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, str): + self.carb_nitro_ratio = str(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.particle_class is not None and not isinstance(self.particle_class, str): + self.particle_class = str(self.particle_class) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.porosity is not None and not isinstance(self.porosity, str): + self.porosity = str(self.porosity) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.sediment_type is not None and not isinstance(self.sediment_type, SedimentTypeEnum): + self.sediment_type = SedimentTypeEnum(self.sediment_type) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tidal_stage is not None and not isinstance(self.tidal_stage, TidalStageEnum): + self.tidal_stage = TidalStageEnum(self.tidal_stage) + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_depth_water_col is not None and not isinstance(self.tot_depth_water_col, str): + self.tot_depth_water_col = str(self.tot_depth_water_col) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, float): + self.carb_nitro_ratio = float(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.magnesium is not None and not isinstance(self.magnesium, str): + self.magnesium = str(self.magnesium) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.methane is not None and not isinstance(self.methane, str): + self.methane = str(self.methane) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.particle_class is not None and not isinstance(self.particle_class, str): + self.particle_class = str(self.particle_class) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.porosity is not None and not isinstance(self.porosity, str): + self.porosity = str(self.porosity) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.sediment_type is not None and not isinstance(self.sediment_type, SedimentTypeEnum): + self.sediment_type = SedimentTypeEnum(self.sediment_type) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tidal_stage is not None and not isinstance(self.tidal_stage, TidalStageEnum): + self.tidal_stage = TidalStageEnum(self.tidal_stage) + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_depth_water_col is not None and not isinstance(self.tot_depth_water_col, str): + self.tot_depth_water_col = str(self.tot_depth_water_col) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class SoilInterface(DhInterface): + """ + soil dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SoilInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:SoilInterface" + class_name: ClassVar[str] = "SoilInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SoilInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + agrochem_addition: Optional[str] = None + air_temp_regm: Optional[str] = None + al_sat: Optional[str] = None + al_sat_meth: Optional[str] = None + ammonium_nitrogen: Optional[str] = None + annual_precpt: Optional[str] = None + annual_temp: Optional[str] = None + biotic_regm: Optional[str] = None + biotic_relationship: Optional[Union[str, "BioticRelationshipEnum"]] = None + carb_nitro_ratio: Optional[str] = None + chem_administration: Optional[str] = None + climate_environment: Optional[str] = None + collection_date: Optional[str] = None + collection_date_inc: Optional[str] = None + collection_time: Optional[str] = None + collection_time_inc: Optional[str] = None + crop_rotation: Optional[str] = None + cur_land_use: Optional[Union[str, "CurLandUseEnum"]] = None + cur_vegetation: Optional[str] = None + cur_vegetation_meth: Optional[str] = None + depth: Optional[str] = None + drainage_class: Optional[Union[str, "DrainageClassEnum"]] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + experimental_factor_other: Optional[str] = None + extreme_event: Optional[str] = None + fao_class: Optional[Union[str, "FaoClassEnum"]] = None + filter_method: Optional[str] = None + fire: Optional[str] = None + flooding: Optional[str] = None + gaseous_environment: Optional[str] = None + geo_loc_name: Optional[str] = None + growth_facil: Optional[str] = None + heavy_metals: Optional[str] = None + heavy_metals_meth: Optional[str] = None + horizon_meth: Optional[str] = None + humidity_regm: Optional[str] = None + isotope_exposure: Optional[str] = None + lat_lon: Optional[str] = None + lbc_thirty: Optional[str] = None + lbceq: Optional[str] = None + light_regm: Optional[str] = None + link_class_info: Optional[str] = None + link_climate_info: Optional[str] = None + local_class: Optional[str] = None + local_class_meth: Optional[str] = None + manganese: Optional[str] = None + micro_biomass_c_meth: Optional[str] = None + micro_biomass_meth: Optional[str] = None + micro_biomass_n_meth: Optional[str] = None + microbial_biomass: Optional[str] = None + microbial_biomass_c: Optional[str] = None + microbial_biomass_n: Optional[str] = None + misc_param: Optional[str] = None + nitrate_nitrogen: Optional[str] = None + nitrite_nitrogen: Optional[str] = None + non_microb_biomass: Optional[str] = None + non_microb_biomass_method: Optional[str] = None + org_matter: Optional[str] = None + org_nitro: Optional[str] = None + org_nitro_method: Optional[str] = None + other_treatment: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phosphate: Optional[str] = None + prev_land_use_meth: Optional[str] = None + previous_land_use: Optional[str] = None + profile_position: Optional[Union[str, "ProfilePositionEnum"]] = None + salinity: Optional[str] = None + salinity_meth: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + season_precpt: Optional[str] = None + season_temp: Optional[str] = None + sieving: Optional[str] = None + size_frac_low: Optional[str] = None + size_frac_up: Optional[str] = None + slope_aspect: Optional[str] = None + slope_gradient: Optional[str] = None + soil_horizon: Optional[Union[str, "SoilHorizonEnum"]] = None + soil_text_measure: Optional[str] = None + soil_texture_meth: Optional[str] = None + soil_type: Optional[str] = None + soil_type_meth: Optional[str] = None + specific_ecosystem: Optional[str] = None + start_date_inc: Optional[str] = None + start_time_inc: Optional[str] = None + store_cond: Optional[str] = None + temp: Optional[str] = None + tillage: Optional[Union[Union[str, "TillageEnum"], List[Union[str, "TillageEnum"]]]] = empty_list() + tot_carb: Optional[str] = None + tot_nitro_cont_meth: Optional[str] = None + tot_nitro_content: Optional[str] = None + tot_org_c_meth: Optional[str] = None + tot_org_carb: Optional[str] = None + tot_phosp: Optional[str] = None + water_cont_soil_meth: Optional[str] = None + water_content: Optional[str] = None + watering_regm: Optional[str] = None + zinc: Optional[str] = None + organism_count: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, EnvBroadScaleSoilEnum): + self.env_broad_scale = EnvBroadScaleSoilEnum(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, EnvLocalScaleSoilEnum): + self.env_local_scale = EnvLocalScaleSoilEnum(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, EnvMediumSoilEnum): + self.env_medium = EnvMediumSoilEnum(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.growth_facil): + self.MissingRequiredField("growth_facil") + if not isinstance(self.growth_facil, GrowthFacilEnum): + self.growth_facil = GrowthFacilEnum(self.growth_facil) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.store_cond): + self.MissingRequiredField("store_cond") + if not isinstance(self.store_cond, StoreCondEnum): + self.store_cond = StoreCondEnum(self.store_cond) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.agrochem_addition is not None and not isinstance(self.agrochem_addition, str): + self.agrochem_addition = str(self.agrochem_addition) + + if self.air_temp_regm is not None and not isinstance(self.air_temp_regm, str): + self.air_temp_regm = str(self.air_temp_regm) + + if self.al_sat is not None and not isinstance(self.al_sat, str): + self.al_sat = str(self.al_sat) + + if self.al_sat_meth is not None and not isinstance(self.al_sat_meth, str): + self.al_sat_meth = str(self.al_sat_meth) + + if self.ammonium_nitrogen is not None and not isinstance(self.ammonium_nitrogen, str): + self.ammonium_nitrogen = str(self.ammonium_nitrogen) + + if self.annual_precpt is not None and not isinstance(self.annual_precpt, str): + self.annual_precpt = str(self.annual_precpt) + + if self.annual_temp is not None and not isinstance(self.annual_temp, str): + self.annual_temp = str(self.annual_temp) + + if self.biotic_regm is not None and not isinstance(self.biotic_regm, str): + self.biotic_regm = str(self.biotic_regm) + + if self.biotic_relationship is not None and not isinstance(self.biotic_relationship, BioticRelationshipEnum): + self.biotic_relationship = BioticRelationshipEnum(self.biotic_relationship) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, str): + self.carb_nitro_ratio = str(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.climate_environment is not None and not isinstance(self.climate_environment, str): + self.climate_environment = str(self.climate_environment) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.collection_date_inc is not None and not isinstance(self.collection_date_inc, str): + self.collection_date_inc = str(self.collection_date_inc) + + if self.collection_time is not None and not isinstance(self.collection_time, str): + self.collection_time = str(self.collection_time) + + if self.collection_time_inc is not None and not isinstance(self.collection_time_inc, str): + self.collection_time_inc = str(self.collection_time_inc) + + if self.crop_rotation is not None and not isinstance(self.crop_rotation, str): + self.crop_rotation = str(self.crop_rotation) + + if self.cur_land_use is not None and not isinstance(self.cur_land_use, CurLandUseEnum): + self.cur_land_use = CurLandUseEnum(self.cur_land_use) + + if self.cur_vegetation is not None and not isinstance(self.cur_vegetation, str): + self.cur_vegetation = str(self.cur_vegetation) + + if self.cur_vegetation_meth is not None and not isinstance(self.cur_vegetation_meth, str): + self.cur_vegetation_meth = str(self.cur_vegetation_meth) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.drainage_class is not None and not isinstance(self.drainage_class, DrainageClassEnum): + self.drainage_class = DrainageClassEnum(self.drainage_class) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.experimental_factor_other is not None and not isinstance(self.experimental_factor_other, str): + self.experimental_factor_other = str(self.experimental_factor_other) + + if self.extreme_event is not None and not isinstance(self.extreme_event, str): + self.extreme_event = str(self.extreme_event) + + if self.fao_class is not None and not isinstance(self.fao_class, FaoClassEnum): + self.fao_class = FaoClassEnum(self.fao_class) + + if self.filter_method is not None and not isinstance(self.filter_method, str): + self.filter_method = str(self.filter_method) + + if self.fire is not None and not isinstance(self.fire, str): + self.fire = str(self.fire) + + if self.flooding is not None and not isinstance(self.flooding, str): + self.flooding = str(self.flooding) + + if self.gaseous_environment is not None and not isinstance(self.gaseous_environment, str): + self.gaseous_environment = str(self.gaseous_environment) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.growth_facil is not None and not isinstance(self.growth_facil, str): + self.growth_facil = str(self.growth_facil) + + if self.heavy_metals is not None and not isinstance(self.heavy_metals, str): + self.heavy_metals = str(self.heavy_metals) + + if self.heavy_metals_meth is not None and not isinstance(self.heavy_metals_meth, str): + self.heavy_metals_meth = str(self.heavy_metals_meth) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.humidity_regm is not None and not isinstance(self.humidity_regm, str): + self.humidity_regm = str(self.humidity_regm) + + if self.isotope_exposure is not None and not isinstance(self.isotope_exposure, str): + self.isotope_exposure = str(self.isotope_exposure) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.lbc_thirty is not None and not isinstance(self.lbc_thirty, str): + self.lbc_thirty = str(self.lbc_thirty) + + if self.lbceq is not None and not isinstance(self.lbceq, str): + self.lbceq = str(self.lbceq) + + if self.light_regm is not None and not isinstance(self.light_regm, str): + self.light_regm = str(self.light_regm) + + if self.link_class_info is not None and not isinstance(self.link_class_info, str): + self.link_class_info = str(self.link_class_info) + + if self.link_climate_info is not None and not isinstance(self.link_climate_info, str): + self.link_climate_info = str(self.link_climate_info) + + if self.local_class is not None and not isinstance(self.local_class, str): + self.local_class = str(self.local_class) + + if self.local_class_meth is not None and not isinstance(self.local_class_meth, str): + self.local_class_meth = str(self.local_class_meth) + + if self.manganese is not None and not isinstance(self.manganese, str): + self.manganese = str(self.manganese) + + if self.micro_biomass_c_meth is not None and not isinstance(self.micro_biomass_c_meth, str): + self.micro_biomass_c_meth = str(self.micro_biomass_c_meth) + + if self.micro_biomass_c_meth is not None and not isinstance(self.micro_biomass_c_meth, str): + self.micro_biomass_c_meth = str(self.micro_biomass_c_meth) + + if self.micro_biomass_meth is not None and not isinstance(self.micro_biomass_meth, str): + self.micro_biomass_meth = str(self.micro_biomass_meth) + + if self.micro_biomass_n_meth is not None and not isinstance(self.micro_biomass_n_meth, str): + self.micro_biomass_n_meth = str(self.micro_biomass_n_meth) + + if self.micro_biomass_n_meth is not None and not isinstance(self.micro_biomass_n_meth, str): + self.micro_biomass_n_meth = str(self.micro_biomass_n_meth) + + if self.microbial_biomass is not None and not isinstance(self.microbial_biomass, str): + self.microbial_biomass = str(self.microbial_biomass) + + if self.microbial_biomass_c is not None and not isinstance(self.microbial_biomass_c, str): + self.microbial_biomass_c = str(self.microbial_biomass_c) + + if self.microbial_biomass_c is not None and not isinstance(self.microbial_biomass_c, str): + self.microbial_biomass_c = str(self.microbial_biomass_c) + + if self.microbial_biomass_n is not None and not isinstance(self.microbial_biomass_n, str): + self.microbial_biomass_n = str(self.microbial_biomass_n) + + if self.microbial_biomass_n is not None and not isinstance(self.microbial_biomass_n, str): + self.microbial_biomass_n = str(self.microbial_biomass_n) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate_nitrogen is not None and not isinstance(self.nitrate_nitrogen, str): + self.nitrate_nitrogen = str(self.nitrate_nitrogen) + + if self.nitrite_nitrogen is not None and not isinstance(self.nitrite_nitrogen, str): + self.nitrite_nitrogen = str(self.nitrite_nitrogen) + + if self.non_microb_biomass is not None and not isinstance(self.non_microb_biomass, str): + self.non_microb_biomass = str(self.non_microb_biomass) + + if self.non_microb_biomass_method is not None and not isinstance(self.non_microb_biomass_method, str): + self.non_microb_biomass_method = str(self.non_microb_biomass_method) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.org_nitro_method is not None and not isinstance(self.org_nitro_method, str): + self.org_nitro_method = str(self.org_nitro_method) + + if self.other_treatment is not None and not isinstance(self.other_treatment, str): + self.other_treatment = str(self.other_treatment) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.prev_land_use_meth is not None and not isinstance(self.prev_land_use_meth, str): + self.prev_land_use_meth = str(self.prev_land_use_meth) + + if self.previous_land_use is not None and not isinstance(self.previous_land_use, str): + self.previous_land_use = str(self.previous_land_use) + + if self.profile_position is not None and not isinstance(self.profile_position, ProfilePositionEnum): + self.profile_position = ProfilePositionEnum(self.profile_position) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.salinity_meth is not None and not isinstance(self.salinity_meth, str): + self.salinity_meth = str(self.salinity_meth) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.season_precpt is not None and not isinstance(self.season_precpt, str): + self.season_precpt = str(self.season_precpt) + + if self.season_temp is not None and not isinstance(self.season_temp, str): + self.season_temp = str(self.season_temp) + + if self.sieving is not None and not isinstance(self.sieving, str): + self.sieving = str(self.sieving) + + if self.size_frac_low is not None and not isinstance(self.size_frac_low, str): + self.size_frac_low = str(self.size_frac_low) + + if self.size_frac_up is not None and not isinstance(self.size_frac_up, str): + self.size_frac_up = str(self.size_frac_up) + + if self.slope_aspect is not None and not isinstance(self.slope_aspect, str): + self.slope_aspect = str(self.slope_aspect) + + if self.slope_gradient is not None and not isinstance(self.slope_gradient, str): + self.slope_gradient = str(self.slope_gradient) + + if self.soil_horizon is not None and not isinstance(self.soil_horizon, SoilHorizonEnum): + self.soil_horizon = SoilHorizonEnum(self.soil_horizon) + + if self.soil_text_measure is not None and not isinstance(self.soil_text_measure, str): + self.soil_text_measure = str(self.soil_text_measure) + + if self.soil_texture_meth is not None and not isinstance(self.soil_texture_meth, str): + self.soil_texture_meth = str(self.soil_texture_meth) + + if self.soil_type is not None and not isinstance(self.soil_type, str): + self.soil_type = str(self.soil_type) + + if self.soil_type_meth is not None and not isinstance(self.soil_type_meth, str): + self.soil_type_meth = str(self.soil_type_meth) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.start_date_inc is not None and not isinstance(self.start_date_inc, str): + self.start_date_inc = str(self.start_date_inc) + + if self.start_time_inc is not None and not isinstance(self.start_time_inc, str): + self.start_time_inc = str(self.start_time_inc) + + if self.store_cond is not None and not isinstance(self.store_cond, str): + self.store_cond = str(self.store_cond) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if not isinstance(self.tillage, list): + self.tillage = [self.tillage] if self.tillage is not None else [] + self.tillage = [v if isinstance(v, TillageEnum) else TillageEnum(v) for v in self.tillage] + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_nitro_cont_meth is not None and not isinstance(self.tot_nitro_cont_meth, str): + self.tot_nitro_cont_meth = str(self.tot_nitro_cont_meth) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_c_meth is not None and not isinstance(self.tot_org_c_meth, str): + self.tot_org_c_meth = str(self.tot_org_c_meth) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.water_cont_soil_meth is not None and not isinstance(self.water_cont_soil_meth, str): + self.water_cont_soil_meth = str(self.water_cont_soil_meth) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.watering_regm is not None and not isinstance(self.watering_regm, str): + self.watering_regm = str(self.watering_regm) + + if self.zinc is not None and not isinstance(self.zinc, str): + self.zinc = str(self.zinc) + + if self.agrochem_addition is not None and not isinstance(self.agrochem_addition, str): + self.agrochem_addition = str(self.agrochem_addition) + + if self.air_temp_regm is not None and not isinstance(self.air_temp_regm, str): + self.air_temp_regm = str(self.air_temp_regm) + + if self.al_sat is not None and not isinstance(self.al_sat, str): + self.al_sat = str(self.al_sat) + + if self.al_sat_meth is not None and not isinstance(self.al_sat_meth, str): + self.al_sat_meth = str(self.al_sat_meth) + + if self.ammonium_nitrogen is not None and not isinstance(self.ammonium_nitrogen, str): + self.ammonium_nitrogen = str(self.ammonium_nitrogen) + + if self.annual_precpt is not None and not isinstance(self.annual_precpt, str): + self.annual_precpt = str(self.annual_precpt) + + if self.annual_temp is not None and not isinstance(self.annual_temp, str): + self.annual_temp = str(self.annual_temp) + + if self.biotic_regm is not None and not isinstance(self.biotic_regm, str): + self.biotic_regm = str(self.biotic_regm) + + if self.biotic_relationship is not None and not isinstance(self.biotic_relationship, BioticRelationshipEnum): + self.biotic_relationship = BioticRelationshipEnum(self.biotic_relationship) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, float): + self.carb_nitro_ratio = float(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.climate_environment is not None and not isinstance(self.climate_environment, str): + self.climate_environment = str(self.climate_environment) + + if self.crop_rotation is not None and not isinstance(self.crop_rotation, str): + self.crop_rotation = str(self.crop_rotation) + + if self.cur_land_use is not None and not isinstance(self.cur_land_use, CurLandUseEnum): + self.cur_land_use = CurLandUseEnum(self.cur_land_use) + + if self.cur_vegetation is not None and not isinstance(self.cur_vegetation, str): + self.cur_vegetation = str(self.cur_vegetation) + + if self.cur_vegetation_meth is not None and not isinstance(self.cur_vegetation_meth, str): + self.cur_vegetation_meth = str(self.cur_vegetation_meth) + + if self.drainage_class is not None and not isinstance(self.drainage_class, DrainageClassEnum): + self.drainage_class = DrainageClassEnum(self.drainage_class) + + if self.ecosystem is not None and not isinstance(self.ecosystem, EcosystemEnum): + self.ecosystem = EcosystemEnum(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, EcosystemCategoryEnum): + self.ecosystem_category = EcosystemCategoryEnum(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, EcosystemSubtypeEnum): + self.ecosystem_subtype = EcosystemSubtypeEnum(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, EcosystemTypeEnum): + self.ecosystem_type = EcosystemTypeEnum(self.ecosystem_type) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.extreme_event is not None and not isinstance(self.extreme_event, str): + self.extreme_event = str(self.extreme_event) + + if self.fao_class is not None and not isinstance(self.fao_class, FaoClassEnum): + self.fao_class = FaoClassEnum(self.fao_class) + + if self.fire is not None and not isinstance(self.fire, str): + self.fire = str(self.fire) + + if self.flooding is not None and not isinstance(self.flooding, str): + self.flooding = str(self.flooding) + + if self.gaseous_environment is not None and not isinstance(self.gaseous_environment, str): + self.gaseous_environment = str(self.gaseous_environment) + + if self.heavy_metals is not None and not isinstance(self.heavy_metals, str): + self.heavy_metals = str(self.heavy_metals) + + if self.heavy_metals_meth is not None and not isinstance(self.heavy_metals_meth, str): + self.heavy_metals_meth = str(self.heavy_metals_meth) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.humidity_regm is not None and not isinstance(self.humidity_regm, str): + self.humidity_regm = str(self.humidity_regm) + + if self.lbc_thirty is not None and not isinstance(self.lbc_thirty, str): + self.lbc_thirty = str(self.lbc_thirty) + + if self.lbceq is not None and not isinstance(self.lbceq, str): + self.lbceq = str(self.lbceq) + + if self.light_regm is not None and not isinstance(self.light_regm, str): + self.light_regm = str(self.light_regm) + + if self.link_class_info is not None and not isinstance(self.link_class_info, str): + self.link_class_info = str(self.link_class_info) + + if self.link_climate_info is not None and not isinstance(self.link_climate_info, str): + self.link_climate_info = str(self.link_climate_info) + + if self.local_class is not None and not isinstance(self.local_class, str): + self.local_class = str(self.local_class) + + if self.local_class_meth is not None and not isinstance(self.local_class_meth, str): + self.local_class_meth = str(self.local_class_meth) + + if self.manganese is not None and not isinstance(self.manganese, str): + self.manganese = str(self.manganese) + + if self.micro_biomass_meth is not None and not isinstance(self.micro_biomass_meth, str): + self.micro_biomass_meth = str(self.micro_biomass_meth) + + if self.microbial_biomass is not None and not isinstance(self.microbial_biomass, str): + self.microbial_biomass = str(self.microbial_biomass) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate_nitrogen is not None and not isinstance(self.nitrate_nitrogen, str): + self.nitrate_nitrogen = str(self.nitrate_nitrogen) + + if self.nitrite_nitrogen is not None and not isinstance(self.nitrite_nitrogen, str): + self.nitrite_nitrogen = str(self.nitrite_nitrogen) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.prev_land_use_meth is not None and not isinstance(self.prev_land_use_meth, str): + self.prev_land_use_meth = str(self.prev_land_use_meth) + + if self.previous_land_use is not None and not isinstance(self.previous_land_use, str): + self.previous_land_use = str(self.previous_land_use) + + if self.profile_position is not None and not isinstance(self.profile_position, ProfilePositionEnum): + self.profile_position = ProfilePositionEnum(self.profile_position) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.salinity_meth is not None and not isinstance(self.salinity_meth, str): + self.salinity_meth = str(self.salinity_meth) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.season_precpt is not None and not isinstance(self.season_precpt, str): + self.season_precpt = str(self.season_precpt) + + if self.season_temp is not None and not isinstance(self.season_temp, str): + self.season_temp = str(self.season_temp) + + if self.sieving is not None and not isinstance(self.sieving, str): + self.sieving = str(self.sieving) + + if self.size_frac_low is not None and not isinstance(self.size_frac_low, str): + self.size_frac_low = str(self.size_frac_low) + + if self.size_frac_up is not None and not isinstance(self.size_frac_up, str): + self.size_frac_up = str(self.size_frac_up) + + if self.slope_aspect is not None and not isinstance(self.slope_aspect, str): + self.slope_aspect = str(self.slope_aspect) + + if self.slope_gradient is not None and not isinstance(self.slope_gradient, str): + self.slope_gradient = str(self.slope_gradient) + + if self.soil_horizon is not None and not isinstance(self.soil_horizon, SoilHorizonEnum): + self.soil_horizon = SoilHorizonEnum(self.soil_horizon) + + if self.soil_text_measure is not None and not isinstance(self.soil_text_measure, str): + self.soil_text_measure = str(self.soil_text_measure) + + if self.soil_texture_meth is not None and not isinstance(self.soil_texture_meth, str): + self.soil_texture_meth = str(self.soil_texture_meth) + + if self.soil_type is not None and not isinstance(self.soil_type, str): + self.soil_type = str(self.soil_type) + + if self.soil_type_meth is not None and not isinstance(self.soil_type_meth, str): + self.soil_type_meth = str(self.soil_type_meth) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, SpecificEcosystemEnum): + self.specific_ecosystem = SpecificEcosystemEnum(self.specific_ecosystem) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if not isinstance(self.tillage, list): + self.tillage = [self.tillage] if self.tillage is not None else [] + self.tillage = [v if isinstance(v, TillageEnum) else TillageEnum(v) for v in self.tillage] + + if self.tot_carb is not None and not isinstance(self.tot_carb, str): + self.tot_carb = str(self.tot_carb) + + if self.tot_nitro_cont_meth is not None and not isinstance(self.tot_nitro_cont_meth, str): + self.tot_nitro_cont_meth = str(self.tot_nitro_cont_meth) + + if self.tot_nitro_content is not None and not isinstance(self.tot_nitro_content, str): + self.tot_nitro_content = str(self.tot_nitro_content) + + if self.tot_org_c_meth is not None and not isinstance(self.tot_org_c_meth, str): + self.tot_org_c_meth = str(self.tot_org_c_meth) + + if self.tot_org_carb is not None and not isinstance(self.tot_org_carb, str): + self.tot_org_carb = str(self.tot_org_carb) + + if self.tot_phosp is not None and not isinstance(self.tot_phosp, str): + self.tot_phosp = str(self.tot_phosp) + + if self.water_cont_soil_meth is not None and not isinstance(self.water_cont_soil_meth, str): + self.water_cont_soil_meth = str(self.water_cont_soil_meth) + + if self.water_content is not None and not isinstance(self.water_content, str): + self.water_content = str(self.water_content) + + if self.watering_regm is not None and not isinstance(self.watering_regm, str): + self.watering_regm = str(self.watering_regm) + + if self.zinc is not None and not isinstance(self.zinc, str): + self.zinc = str(self.zinc) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class WastewaterSludgeInterface(DhInterface): + """ + wastewater_sludge dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.WastewaterSludgeInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:WastewaterSludgeInterface" + class_name: ClassVar[str] = "WastewaterSludgeInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.WastewaterSludgeInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alkalinity: Optional[str] = None + biochem_oxygen_dem: Optional[str] = None + chem_administration: Optional[str] = None + chem_oxygen_dem: Optional[str] = None + collection_date: Optional[str] = None + depth: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + efficiency_percent: Optional[str] = None + elev: Optional[str] = None + emulsions: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + gaseous_substances: Optional[str] = None + geo_loc_name: Optional[str] = None + horizon_meth: Optional[str] = None + indust_eff_percent: Optional[str] = None + inorg_particles: Optional[str] = None + lat_lon: Optional[str] = None + misc_param: Optional[str] = None + nitrate: Optional[str] = None + org_particles: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + perturbation: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phosphate: Optional[str] = None + pre_treatment: Optional[str] = None + primary_treatment: Optional[str] = None + reactor_type: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + secondary_treatment: Optional[str] = None + sewage_type: Optional[str] = None + size_frac: Optional[str] = None + sludge_retent_time: Optional[str] = None + sodium: Optional[str] = None + soluble_inorg_mat: Optional[str] = None + soluble_org_mat: Optional[str] = None + specific_ecosystem: Optional[str] = None + suspend_solids: Optional[str] = None + temp: Optional[str] = None + tertiary_treatment: Optional[str] = None + tot_nitro: Optional[str] = None + tot_phosphate: Optional[str] = None + wastewater_type: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.elev): + self.MissingRequiredField("elev") + if not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.lat_lon): + self.MissingRequiredField("lat_lon") + if not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self._is_empty(self.samp_store_temp): + self.MissingRequiredField("samp_store_temp") + if not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.biochem_oxygen_dem is not None and not isinstance(self.biochem_oxygen_dem, str): + self.biochem_oxygen_dem = str(self.biochem_oxygen_dem) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_oxygen_dem is not None and not isinstance(self.chem_oxygen_dem, str): + self.chem_oxygen_dem = str(self.chem_oxygen_dem) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.efficiency_percent is not None and not isinstance(self.efficiency_percent, str): + self.efficiency_percent = str(self.efficiency_percent) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.emulsions is not None and not isinstance(self.emulsions, str): + self.emulsions = str(self.emulsions) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.gaseous_substances is not None and not isinstance(self.gaseous_substances, str): + self.gaseous_substances = str(self.gaseous_substances) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.indust_eff_percent is not None and not isinstance(self.indust_eff_percent, str): + self.indust_eff_percent = str(self.indust_eff_percent) + + if self.inorg_particles is not None and not isinstance(self.inorg_particles, str): + self.inorg_particles = str(self.inorg_particles) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.org_particles is not None and not isinstance(self.org_particles, str): + self.org_particles = str(self.org_particles) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.pre_treatment is not None and not isinstance(self.pre_treatment, str): + self.pre_treatment = str(self.pre_treatment) + + if self.primary_treatment is not None and not isinstance(self.primary_treatment, str): + self.primary_treatment = str(self.primary_treatment) + + if self.reactor_type is not None and not isinstance(self.reactor_type, str): + self.reactor_type = str(self.reactor_type) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.secondary_treatment is not None and not isinstance(self.secondary_treatment, str): + self.secondary_treatment = str(self.secondary_treatment) + + if self.sewage_type is not None and not isinstance(self.sewage_type, str): + self.sewage_type = str(self.sewage_type) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sludge_retent_time is not None and not isinstance(self.sludge_retent_time, str): + self.sludge_retent_time = str(self.sludge_retent_time) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.soluble_inorg_mat is not None and not isinstance(self.soluble_inorg_mat, str): + self.soluble_inorg_mat = str(self.soluble_inorg_mat) + + if self.soluble_org_mat is not None and not isinstance(self.soluble_org_mat, str): + self.soluble_org_mat = str(self.soluble_org_mat) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tertiary_treatment is not None and not isinstance(self.tertiary_treatment, str): + self.tertiary_treatment = str(self.tertiary_treatment) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosphate is not None and not isinstance(self.tot_phosphate, str): + self.tot_phosphate = str(self.tot_phosphate) + + if self.wastewater_type is not None and not isinstance(self.wastewater_type, str): + self.wastewater_type = str(self.wastewater_type) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.biochem_oxygen_dem is not None and not isinstance(self.biochem_oxygen_dem, str): + self.biochem_oxygen_dem = str(self.biochem_oxygen_dem) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chem_oxygen_dem is not None and not isinstance(self.chem_oxygen_dem, str): + self.chem_oxygen_dem = str(self.chem_oxygen_dem) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.efficiency_percent is not None and not isinstance(self.efficiency_percent, str): + self.efficiency_percent = str(self.efficiency_percent) + + if self.emulsions is not None and not isinstance(self.emulsions, str): + self.emulsions = str(self.emulsions) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.gaseous_substances is not None and not isinstance(self.gaseous_substances, str): + self.gaseous_substances = str(self.gaseous_substances) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.indust_eff_percent is not None and not isinstance(self.indust_eff_percent, str): + self.indust_eff_percent = str(self.indust_eff_percent) + + if self.inorg_particles is not None and not isinstance(self.inorg_particles, str): + self.inorg_particles = str(self.inorg_particles) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.org_particles is not None and not isinstance(self.org_particles, str): + self.org_particles = str(self.org_particles) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.pre_treatment is not None and not isinstance(self.pre_treatment, str): + self.pre_treatment = str(self.pre_treatment) + + if self.primary_treatment is not None and not isinstance(self.primary_treatment, str): + self.primary_treatment = str(self.primary_treatment) + + if self.reactor_type is not None and not isinstance(self.reactor_type, str): + self.reactor_type = str(self.reactor_type) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.secondary_treatment is not None and not isinstance(self.secondary_treatment, str): + self.secondary_treatment = str(self.secondary_treatment) + + if self.sewage_type is not None and not isinstance(self.sewage_type, str): + self.sewage_type = str(self.sewage_type) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.sludge_retent_time is not None and not isinstance(self.sludge_retent_time, str): + self.sludge_retent_time = str(self.sludge_retent_time) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.soluble_inorg_mat is not None and not isinstance(self.soluble_inorg_mat, str): + self.soluble_inorg_mat = str(self.soluble_inorg_mat) + + if self.soluble_org_mat is not None and not isinstance(self.soluble_org_mat, str): + self.soluble_org_mat = str(self.soluble_org_mat) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.suspend_solids is not None and not isinstance(self.suspend_solids, str): + self.suspend_solids = str(self.suspend_solids) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tertiary_treatment is not None and not isinstance(self.tertiary_treatment, str): + self.tertiary_treatment = str(self.tertiary_treatment) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_phosphate is not None and not isinstance(self.tot_phosphate, str): + self.tot_phosphate = str(self.tot_phosphate) + + if self.wastewater_type is not None and not isinstance(self.wastewater_type, str): + self.wastewater_type = str(self.wastewater_type) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class WaterInterface(DhInterface): + """ + water dh_interface + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.WaterInterface + class_class_curie: ClassVar[str] = "nmdc_sub_schema:WaterInterface" + class_name: ClassVar[str] = "WaterInterface" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.WaterInterface + + analysis_type: Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]] = None + alkalinity: Optional[str] = None + alkalinity_method: Optional[str] = None + alkyl_diethers: Optional[str] = None + aminopept_act: Optional[str] = None + ammonium: Optional[str] = None + atmospheric_data: Optional[str] = None + bac_prod: Optional[str] = None + bac_resp: Optional[str] = None + bacteria_carb_prod: Optional[str] = None + biomass: Optional[str] = None + bishomohopanol: Optional[str] = None + bromide: Optional[str] = None + calcium: Optional[str] = None + carb_nitro_ratio: Optional[str] = None + chem_administration: Optional[str] = None + chloride: Optional[str] = None + chlorophyll: Optional[str] = None + collection_date: Optional[str] = None + conduc: Optional[str] = None + density: Optional[str] = None + depth: Optional[str] = None + diether_lipids: Optional[str] = None + diss_carb_dioxide: Optional[str] = None + diss_hydrogen: Optional[str] = None + diss_inorg_carb: Optional[str] = None + diss_inorg_nitro: Optional[str] = None + diss_inorg_phosp: Optional[str] = None + diss_org_carb: Optional[str] = None + diss_org_nitro: Optional[str] = None + diss_oxygen: Optional[str] = None + down_par: Optional[str] = None + ecosystem: Optional[str] = None + ecosystem_category: Optional[str] = None + ecosystem_subtype: Optional[str] = None + ecosystem_type: Optional[str] = None + elev: Optional[str] = None + env_broad_scale: Optional[str] = None + env_local_scale: Optional[str] = None + env_medium: Optional[str] = None + env_package: Optional[str] = None + experimental_factor: Optional[str] = None + fluor: Optional[str] = None + geo_loc_name: Optional[str] = None + glucosidase_act: Optional[str] = None + horizon_meth: Optional[str] = None + lat_lon: Optional[str] = None + light_intensity: Optional[str] = None + mean_frict_vel: Optional[str] = None + mean_peak_frict_vel: Optional[str] = None + misc_param: Optional[str] = None + n_alkanes: Optional[str] = None + nitrate: Optional[str] = None + nitrite: Optional[str] = None + nitro: Optional[str] = None + org_carb: Optional[str] = None + org_matter: Optional[str] = None + org_nitro: Optional[str] = None + organism_count: Optional[str] = None + oxy_stat_samp: Optional[Union[str, "OxyStatSampEnum"]] = None + part_org_carb: Optional[str] = None + part_org_nitro: Optional[str] = None + perturbation: Optional[str] = None + petroleum_hydrocarb: Optional[str] = None + ph: Optional[float] = None + ph_meth: Optional[str] = None + phaeopigments: Optional[str] = None + phosphate: Optional[str] = None + phosplipid_fatt_acid: Optional[str] = None + photon_flux: Optional[str] = None + potassium: Optional[str] = None + pressure: Optional[str] = None + primary_prod: Optional[str] = None + redox_potential: Optional[str] = None + salinity: Optional[str] = None + samp_collec_device: Optional[str] = None + samp_collec_method: Optional[str] = None + samp_mat_process: Optional[str] = None + samp_size: Optional[str] = None + samp_store_dur: Optional[str] = None + samp_store_loc: Optional[str] = None + samp_store_temp: Optional[str] = None + sample_link: Optional[str] = None + silicate: Optional[str] = None + size_frac: Optional[str] = None + size_frac_low: Optional[str] = None + size_frac_up: Optional[str] = None + sodium: Optional[str] = None + soluble_react_phosp: Optional[str] = None + specific_ecosystem: Optional[str] = None + sulfate: Optional[str] = None + sulfide: Optional[str] = None + suspend_part_matter: Optional[str] = None + temp: Optional[str] = None + tidal_stage: Optional[Union[str, "TidalStageEnum"]] = None + tot_depth_water_col: Optional[str] = None + tot_diss_nitro: Optional[str] = None + tot_inorg_nitro: Optional[str] = None + tot_nitro: Optional[str] = None + tot_part_carb: Optional[str] = None + turbidity: Optional[str] = None + water_current: Optional[str] = None + samp_name: Optional[str] = None + source_mat_id: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.collection_date): + self.MissingRequiredField("collection_date") + if not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self._is_empty(self.depth): + self.MissingRequiredField("depth") + if not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self._is_empty(self.env_broad_scale): + self.MissingRequiredField("env_broad_scale") + if not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self._is_empty(self.env_local_scale): + self.MissingRequiredField("env_local_scale") + if not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self._is_empty(self.env_medium): + self.MissingRequiredField("env_medium") + if not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self._is_empty(self.env_package): + self.MissingRequiredField("env_package") + if not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self._is_empty(self.geo_loc_name): + self.MissingRequiredField("geo_loc_name") + if not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self._is_empty(self.analysis_type): + self.MissingRequiredField("analysis_type") + if not isinstance(self.analysis_type, list): + self.analysis_type = [self.analysis_type] if self.analysis_type is not None else [] + self.analysis_type = [v if isinstance(v, AnalysisTypeEnum) else AnalysisTypeEnum(v) for v in self.analysis_type] + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.atmospheric_data is not None and not isinstance(self.atmospheric_data, str): + self.atmospheric_data = str(self.atmospheric_data) + + if self.bac_prod is not None and not isinstance(self.bac_prod, str): + self.bac_prod = str(self.bac_prod) + + if self.bac_resp is not None and not isinstance(self.bac_resp, str): + self.bac_resp = str(self.bac_resp) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, str): + self.carb_nitro_ratio = str(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.collection_date is not None and not isinstance(self.collection_date, str): + self.collection_date = str(self.collection_date) + + if self.conduc is not None and not isinstance(self.conduc, str): + self.conduc = str(self.conduc) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.depth is not None and not isinstance(self.depth, str): + self.depth = str(self.depth) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_nitro is not None and not isinstance(self.diss_inorg_nitro, str): + self.diss_inorg_nitro = str(self.diss_inorg_nitro) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.down_par is not None and not isinstance(self.down_par, str): + self.down_par = str(self.down_par) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, str): + self.elev = str(self.elev) + + if self.env_broad_scale is not None and not isinstance(self.env_broad_scale, str): + self.env_broad_scale = str(self.env_broad_scale) + + if self.env_local_scale is not None and not isinstance(self.env_local_scale, str): + self.env_local_scale = str(self.env_local_scale) + + if self.env_medium is not None and not isinstance(self.env_medium, str): + self.env_medium = str(self.env_medium) + + if self.env_package is not None and not isinstance(self.env_package, str): + self.env_package = str(self.env_package) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.fluor is not None and not isinstance(self.fluor, str): + self.fluor = str(self.fluor) + + if self.geo_loc_name is not None and not isinstance(self.geo_loc_name, str): + self.geo_loc_name = str(self.geo_loc_name) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.light_intensity is not None and not isinstance(self.light_intensity, str): + self.light_intensity = str(self.light_intensity) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.part_org_nitro is not None and not isinstance(self.part_org_nitro, str): + self.part_org_nitro = str(self.part_org_nitro) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.photon_flux is not None and not isinstance(self.photon_flux, str): + self.photon_flux = str(self.photon_flux) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.primary_prod is not None and not isinstance(self.primary_prod, str): + self.primary_prod = str(self.primary_prod) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.sample_link is not None and not isinstance(self.sample_link, str): + self.sample_link = str(self.sample_link) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.size_frac_low is not None and not isinstance(self.size_frac_low, str): + self.size_frac_low = str(self.size_frac_low) + + if self.size_frac_up is not None and not isinstance(self.size_frac_up, str): + self.size_frac_up = str(self.size_frac_up) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.soluble_react_phosp is not None and not isinstance(self.soluble_react_phosp, str): + self.soluble_react_phosp = str(self.soluble_react_phosp) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_part_matter is not None and not isinstance(self.suspend_part_matter, str): + self.suspend_part_matter = str(self.suspend_part_matter) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tidal_stage is not None and not isinstance(self.tidal_stage, TidalStageEnum): + self.tidal_stage = TidalStageEnum(self.tidal_stage) + + if self.tot_depth_water_col is not None and not isinstance(self.tot_depth_water_col, str): + self.tot_depth_water_col = str(self.tot_depth_water_col) + + if self.tot_diss_nitro is not None and not isinstance(self.tot_diss_nitro, str): + self.tot_diss_nitro = str(self.tot_diss_nitro) + + if self.tot_inorg_nitro is not None and not isinstance(self.tot_inorg_nitro, str): + self.tot_inorg_nitro = str(self.tot_inorg_nitro) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_part_carb is not None and not isinstance(self.tot_part_carb, str): + self.tot_part_carb = str(self.tot_part_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_current is not None and not isinstance(self.water_current, str): + self.water_current = str(self.water_current) + + if self.alkalinity is not None and not isinstance(self.alkalinity, str): + self.alkalinity = str(self.alkalinity) + + if self.alkalinity_method is not None and not isinstance(self.alkalinity_method, str): + self.alkalinity_method = str(self.alkalinity_method) + + if self.alkyl_diethers is not None and not isinstance(self.alkyl_diethers, str): + self.alkyl_diethers = str(self.alkyl_diethers) + + if self.aminopept_act is not None and not isinstance(self.aminopept_act, str): + self.aminopept_act = str(self.aminopept_act) + + if self.ammonium is not None and not isinstance(self.ammonium, str): + self.ammonium = str(self.ammonium) + + if self.atmospheric_data is not None and not isinstance(self.atmospheric_data, str): + self.atmospheric_data = str(self.atmospheric_data) + + if self.bac_prod is not None and not isinstance(self.bac_prod, str): + self.bac_prod = str(self.bac_prod) + + if self.bac_resp is not None and not isinstance(self.bac_resp, str): + self.bac_resp = str(self.bac_resp) + + if self.bacteria_carb_prod is not None and not isinstance(self.bacteria_carb_prod, str): + self.bacteria_carb_prod = str(self.bacteria_carb_prod) + + if self.biomass is not None and not isinstance(self.biomass, str): + self.biomass = str(self.biomass) + + if self.bishomohopanol is not None and not isinstance(self.bishomohopanol, str): + self.bishomohopanol = str(self.bishomohopanol) + + if self.bromide is not None and not isinstance(self.bromide, str): + self.bromide = str(self.bromide) + + if self.calcium is not None and not isinstance(self.calcium, str): + self.calcium = str(self.calcium) + + if self.carb_nitro_ratio is not None and not isinstance(self.carb_nitro_ratio, float): + self.carb_nitro_ratio = float(self.carb_nitro_ratio) + + if self.chem_administration is not None and not isinstance(self.chem_administration, str): + self.chem_administration = str(self.chem_administration) + + if self.chloride is not None and not isinstance(self.chloride, str): + self.chloride = str(self.chloride) + + if self.chlorophyll is not None and not isinstance(self.chlorophyll, str): + self.chlorophyll = str(self.chlorophyll) + + if self.conduc is not None and not isinstance(self.conduc, str): + self.conduc = str(self.conduc) + + if self.density is not None and not isinstance(self.density, str): + self.density = str(self.density) + + if self.diether_lipids is not None and not isinstance(self.diether_lipids, str): + self.diether_lipids = str(self.diether_lipids) + + if self.diss_carb_dioxide is not None and not isinstance(self.diss_carb_dioxide, str): + self.diss_carb_dioxide = str(self.diss_carb_dioxide) + + if self.diss_hydrogen is not None and not isinstance(self.diss_hydrogen, str): + self.diss_hydrogen = str(self.diss_hydrogen) + + if self.diss_inorg_carb is not None and not isinstance(self.diss_inorg_carb, str): + self.diss_inorg_carb = str(self.diss_inorg_carb) + + if self.diss_inorg_nitro is not None and not isinstance(self.diss_inorg_nitro, str): + self.diss_inorg_nitro = str(self.diss_inorg_nitro) + + if self.diss_inorg_phosp is not None and not isinstance(self.diss_inorg_phosp, str): + self.diss_inorg_phosp = str(self.diss_inorg_phosp) + + if self.diss_org_carb is not None and not isinstance(self.diss_org_carb, str): + self.diss_org_carb = str(self.diss_org_carb) + + if self.diss_org_nitro is not None and not isinstance(self.diss_org_nitro, str): + self.diss_org_nitro = str(self.diss_org_nitro) + + if self.diss_oxygen is not None and not isinstance(self.diss_oxygen, str): + self.diss_oxygen = str(self.diss_oxygen) + + if self.down_par is not None and not isinstance(self.down_par, str): + self.down_par = str(self.down_par) + + if self.ecosystem is not None and not isinstance(self.ecosystem, str): + self.ecosystem = str(self.ecosystem) + + if self.ecosystem_category is not None and not isinstance(self.ecosystem_category, str): + self.ecosystem_category = str(self.ecosystem_category) + + if self.ecosystem_subtype is not None and not isinstance(self.ecosystem_subtype, str): + self.ecosystem_subtype = str(self.ecosystem_subtype) + + if self.ecosystem_type is not None and not isinstance(self.ecosystem_type, str): + self.ecosystem_type = str(self.ecosystem_type) + + if self.elev is not None and not isinstance(self.elev, float): + self.elev = float(self.elev) + + if self.experimental_factor is not None and not isinstance(self.experimental_factor, str): + self.experimental_factor = str(self.experimental_factor) + + if self.fluor is not None and not isinstance(self.fluor, str): + self.fluor = str(self.fluor) + + if self.glucosidase_act is not None and not isinstance(self.glucosidase_act, str): + self.glucosidase_act = str(self.glucosidase_act) + + if self.horizon_meth is not None and not isinstance(self.horizon_meth, str): + self.horizon_meth = str(self.horizon_meth) + + if self.lat_lon is not None and not isinstance(self.lat_lon, str): + self.lat_lon = str(self.lat_lon) + + if self.light_intensity is not None and not isinstance(self.light_intensity, str): + self.light_intensity = str(self.light_intensity) + + if self.mean_frict_vel is not None and not isinstance(self.mean_frict_vel, str): + self.mean_frict_vel = str(self.mean_frict_vel) + + if self.mean_peak_frict_vel is not None and not isinstance(self.mean_peak_frict_vel, str): + self.mean_peak_frict_vel = str(self.mean_peak_frict_vel) + + if self.misc_param is not None and not isinstance(self.misc_param, str): + self.misc_param = str(self.misc_param) + + if self.n_alkanes is not None and not isinstance(self.n_alkanes, str): + self.n_alkanes = str(self.n_alkanes) + + if self.nitrate is not None and not isinstance(self.nitrate, str): + self.nitrate = str(self.nitrate) + + if self.nitrite is not None and not isinstance(self.nitrite, str): + self.nitrite = str(self.nitrite) + + if self.nitro is not None and not isinstance(self.nitro, str): + self.nitro = str(self.nitro) + + if self.org_carb is not None and not isinstance(self.org_carb, str): + self.org_carb = str(self.org_carb) + + if self.org_matter is not None and not isinstance(self.org_matter, str): + self.org_matter = str(self.org_matter) + + if self.org_nitro is not None and not isinstance(self.org_nitro, str): + self.org_nitro = str(self.org_nitro) + + if self.organism_count is not None and not isinstance(self.organism_count, str): + self.organism_count = str(self.organism_count) + + if self.oxy_stat_samp is not None and not isinstance(self.oxy_stat_samp, OxyStatSampEnum): + self.oxy_stat_samp = OxyStatSampEnum(self.oxy_stat_samp) + + if self.part_org_carb is not None and not isinstance(self.part_org_carb, str): + self.part_org_carb = str(self.part_org_carb) + + if self.part_org_nitro is not None and not isinstance(self.part_org_nitro, str): + self.part_org_nitro = str(self.part_org_nitro) + + if self.perturbation is not None and not isinstance(self.perturbation, str): + self.perturbation = str(self.perturbation) + + if self.petroleum_hydrocarb is not None and not isinstance(self.petroleum_hydrocarb, str): + self.petroleum_hydrocarb = str(self.petroleum_hydrocarb) + + if self.ph is not None and not isinstance(self.ph, float): + self.ph = float(self.ph) + + if self.ph_meth is not None and not isinstance(self.ph_meth, str): + self.ph_meth = str(self.ph_meth) + + if self.phaeopigments is not None and not isinstance(self.phaeopigments, str): + self.phaeopigments = str(self.phaeopigments) + + if self.phosphate is not None and not isinstance(self.phosphate, str): + self.phosphate = str(self.phosphate) + + if self.phosplipid_fatt_acid is not None and not isinstance(self.phosplipid_fatt_acid, str): + self.phosplipid_fatt_acid = str(self.phosplipid_fatt_acid) + + if self.photon_flux is not None and not isinstance(self.photon_flux, str): + self.photon_flux = str(self.photon_flux) + + if self.potassium is not None and not isinstance(self.potassium, str): + self.potassium = str(self.potassium) + + if self.pressure is not None and not isinstance(self.pressure, str): + self.pressure = str(self.pressure) + + if self.primary_prod is not None and not isinstance(self.primary_prod, str): + self.primary_prod = str(self.primary_prod) + + if self.redox_potential is not None and not isinstance(self.redox_potential, str): + self.redox_potential = str(self.redox_potential) + + if self.salinity is not None and not isinstance(self.salinity, str): + self.salinity = str(self.salinity) + + if self.samp_collec_device is not None and not isinstance(self.samp_collec_device, str): + self.samp_collec_device = str(self.samp_collec_device) + + if self.samp_collec_method is not None and not isinstance(self.samp_collec_method, str): + self.samp_collec_method = str(self.samp_collec_method) + + if self.samp_mat_process is not None and not isinstance(self.samp_mat_process, str): + self.samp_mat_process = str(self.samp_mat_process) + + if self.samp_size is not None and not isinstance(self.samp_size, str): + self.samp_size = str(self.samp_size) + + if self.samp_store_dur is not None and not isinstance(self.samp_store_dur, str): + self.samp_store_dur = str(self.samp_store_dur) + + if self.samp_store_loc is not None and not isinstance(self.samp_store_loc, str): + self.samp_store_loc = str(self.samp_store_loc) + + if self.samp_store_temp is not None and not isinstance(self.samp_store_temp, str): + self.samp_store_temp = str(self.samp_store_temp) + + if self.silicate is not None and not isinstance(self.silicate, str): + self.silicate = str(self.silicate) + + if self.size_frac is not None and not isinstance(self.size_frac, str): + self.size_frac = str(self.size_frac) + + if self.size_frac_low is not None and not isinstance(self.size_frac_low, str): + self.size_frac_low = str(self.size_frac_low) + + if self.size_frac_up is not None and not isinstance(self.size_frac_up, str): + self.size_frac_up = str(self.size_frac_up) + + if self.sodium is not None and not isinstance(self.sodium, str): + self.sodium = str(self.sodium) + + if self.soluble_react_phosp is not None and not isinstance(self.soluble_react_phosp, str): + self.soluble_react_phosp = str(self.soluble_react_phosp) + + if self.specific_ecosystem is not None and not isinstance(self.specific_ecosystem, str): + self.specific_ecosystem = str(self.specific_ecosystem) + + if self.sulfate is not None and not isinstance(self.sulfate, str): + self.sulfate = str(self.sulfate) + + if self.sulfide is not None and not isinstance(self.sulfide, str): + self.sulfide = str(self.sulfide) + + if self.suspend_part_matter is not None and not isinstance(self.suspend_part_matter, str): + self.suspend_part_matter = str(self.suspend_part_matter) + + if self.temp is not None and not isinstance(self.temp, str): + self.temp = str(self.temp) + + if self.tidal_stage is not None and not isinstance(self.tidal_stage, TidalStageEnum): + self.tidal_stage = TidalStageEnum(self.tidal_stage) + + if self.tot_depth_water_col is not None and not isinstance(self.tot_depth_water_col, str): + self.tot_depth_water_col = str(self.tot_depth_water_col) + + if self.tot_diss_nitro is not None and not isinstance(self.tot_diss_nitro, str): + self.tot_diss_nitro = str(self.tot_diss_nitro) + + if self.tot_inorg_nitro is not None and not isinstance(self.tot_inorg_nitro, str): + self.tot_inorg_nitro = str(self.tot_inorg_nitro) + + if self.tot_nitro is not None and not isinstance(self.tot_nitro, str): + self.tot_nitro = str(self.tot_nitro) + + if self.tot_part_carb is not None and not isinstance(self.tot_part_carb, str): + self.tot_part_carb = str(self.tot_part_carb) + + if self.turbidity is not None and not isinstance(self.turbidity, str): + self.turbidity = str(self.turbidity) + + if self.water_current is not None and not isinstance(self.water_current, str): + self.water_current = str(self.water_current) + + if self.samp_name is not None and not isinstance(self.samp_name, str): + self.samp_name = str(self.samp_name) + + if self.source_mat_id is not None and not isinstance(self.source_mat_id, str): + self.source_mat_id = str(self.source_mat_id) + + super().__post_init__(**kwargs) + + +@dataclass +class SampleData(YAMLRoot): + """ + represents data produced by the DataHarmonizer tabs of the submission portal + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SampleData + class_class_curie: ClassVar[str] = "nmdc_sub_schema:SampleData" + class_name: ClassVar[str] = "SampleData" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.SampleData + + air_data: Optional[Union[Union[dict, AirInterface], List[Union[dict, AirInterface]]]] = empty_list() + biofilm_data: Optional[Union[Union[dict, BiofilmInterface], List[Union[dict, BiofilmInterface]]]] = empty_list() + built_env_data: Optional[Union[Union[dict, BuiltEnvInterface], List[Union[dict, BuiltEnvInterface]]]] = empty_list() + host_associated_data: Optional[Union[Union[dict, HostAssociatedInterface], List[Union[dict, HostAssociatedInterface]]]] = empty_list() + plant_associated_data: Optional[Union[Union[dict, PlantAssociatedInterface], List[Union[dict, PlantAssociatedInterface]]]] = empty_list() + sediment_data: Optional[Union[Union[dict, SedimentInterface], List[Union[dict, SedimentInterface]]]] = empty_list() + soil_data: Optional[Union[Union[dict, SoilInterface], List[Union[dict, SoilInterface]]]] = empty_list() + wastewater_sludge_data: Optional[Union[Union[dict, WastewaterSludgeInterface], List[Union[dict, WastewaterSludgeInterface]]]] = empty_list() + water_data: Optional[Union[Union[dict, WaterInterface], List[Union[dict, WaterInterface]]]] = empty_list() + emsl_data: Optional[Union[Union[dict, EmslInterface], List[Union[dict, EmslInterface]]]] = empty_list() + jgi_mg_data: Optional[Union[Union[dict, JgiMgInterface], List[Union[dict, JgiMgInterface]]]] = empty_list() + jgi_mt_data: Optional[Union[Union[dict, JgiMtInterface], List[Union[dict, JgiMtInterface]]]] = empty_list() + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if not isinstance(self.air_data, list): + self.air_data = [self.air_data] if self.air_data is not None else [] + self.air_data = [v if isinstance(v, AirInterface) else AirInterface(**as_dict(v)) for v in self.air_data] + + if not isinstance(self.biofilm_data, list): + self.biofilm_data = [self.biofilm_data] if self.biofilm_data is not None else [] + self.biofilm_data = [v if isinstance(v, BiofilmInterface) else BiofilmInterface(**as_dict(v)) for v in self.biofilm_data] + + if not isinstance(self.built_env_data, list): + self.built_env_data = [self.built_env_data] if self.built_env_data is not None else [] + self.built_env_data = [v if isinstance(v, BuiltEnvInterface) else BuiltEnvInterface(**as_dict(v)) for v in self.built_env_data] + + if not isinstance(self.host_associated_data, list): + self.host_associated_data = [self.host_associated_data] if self.host_associated_data is not None else [] + self.host_associated_data = [v if isinstance(v, HostAssociatedInterface) else HostAssociatedInterface(**as_dict(v)) for v in self.host_associated_data] + + if not isinstance(self.plant_associated_data, list): + self.plant_associated_data = [self.plant_associated_data] if self.plant_associated_data is not None else [] + self.plant_associated_data = [v if isinstance(v, PlantAssociatedInterface) else PlantAssociatedInterface(**as_dict(v)) for v in self.plant_associated_data] + + if not isinstance(self.sediment_data, list): + self.sediment_data = [self.sediment_data] if self.sediment_data is not None else [] + self.sediment_data = [v if isinstance(v, SedimentInterface) else SedimentInterface(**as_dict(v)) for v in self.sediment_data] + + if not isinstance(self.soil_data, list): + self.soil_data = [self.soil_data] if self.soil_data is not None else [] + self.soil_data = [v if isinstance(v, SoilInterface) else SoilInterface(**as_dict(v)) for v in self.soil_data] + + if not isinstance(self.wastewater_sludge_data, list): + self.wastewater_sludge_data = [self.wastewater_sludge_data] if self.wastewater_sludge_data is not None else [] + self.wastewater_sludge_data = [v if isinstance(v, WastewaterSludgeInterface) else WastewaterSludgeInterface(**as_dict(v)) for v in self.wastewater_sludge_data] + + if not isinstance(self.water_data, list): + self.water_data = [self.water_data] if self.water_data is not None else [] + self.water_data = [v if isinstance(v, WaterInterface) else WaterInterface(**as_dict(v)) for v in self.water_data] + + if not isinstance(self.emsl_data, list): + self.emsl_data = [self.emsl_data] if self.emsl_data is not None else [] + self.emsl_data = [v if isinstance(v, EmslInterface) else EmslInterface(**as_dict(v)) for v in self.emsl_data] + + if not isinstance(self.jgi_mg_data, list): + self.jgi_mg_data = [self.jgi_mg_data] if self.jgi_mg_data is not None else [] + self.jgi_mg_data = [v if isinstance(v, JgiMgInterface) else JgiMgInterface(**as_dict(v)) for v in self.jgi_mg_data] + + if not isinstance(self.jgi_mt_data, list): + self.jgi_mt_data = [self.jgi_mt_data] if self.jgi_mt_data is not None else [] + self.jgi_mt_data = [v if isinstance(v, JgiMtInterface) else JgiMtInterface(**as_dict(v)) for v in self.jgi_mt_data] + + super().__post_init__(**kwargs) + + +@dataclass +class NamedThing(YAMLRoot): + """ + a databased entity or concept/class + """ + _inherited_slots: ClassVar[List[str]] = [] + + class_class_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.NamedThing + class_class_curie: ClassVar[str] = "nmdc_sub_schema:NamedThing" + class_name: ClassVar[str] = "NamedThing" + class_model_uri: ClassVar[URIRef] = NMDC_SUB_SCHEMA.NamedThing + + id: Union[str, NamedThingId] = None + name: Optional[str] = None + description: Optional[str] = None + alternative_identifiers: Optional[str] = None + + def __post_init__(self, *_: List[str], **kwargs: Dict[str, Any]): + if self._is_empty(self.id): + self.MissingRequiredField("id") + if not isinstance(self.id, NamedThingId): + self.id = NamedThingId(self.id) + + if self.name is not None and not isinstance(self.name, str): + self.name = str(self.name) + + if self.description is not None and not isinstance(self.description, str): + self.description = str(self.description) + + if self.alternative_identifiers is not None and not isinstance(self.alternative_identifiers, str): + self.alternative_identifiers = str(self.alternative_identifiers) + + super().__post_init__(**kwargs) + + +# Enumerations +class AnalysisTypeEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + metabolomics = PermissibleValue(text="metabolomics", + description="placeholder PV descr") + metagenomics = PermissibleValue(text="metagenomics", + description="placeholder PV descr") + metaproteomics = PermissibleValue(text="metaproteomics", + description="placeholder PV descr") + metatranscriptomics = PermissibleValue(text="metatranscriptomics", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="AnalysisTypeEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "natural organic matter", + PermissibleValue(text="natural organic matter", + description="placeholder PV descr") ) + +class BioticRelationshipEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + commensalism = PermissibleValue(text="commensalism", + description="placeholder PV descr") + mutualism = PermissibleValue(text="mutualism", + description="placeholder PV descr") + parasitism = PermissibleValue(text="parasitism", + description="placeholder PV descr") + symbiotic = PermissibleValue(text="symbiotic", + description="placeholder enum descr") + + _defn = EnumDefinition( + name="BioticRelationshipEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "free living", + PermissibleValue(text="free living", + description="placeholder PV descr") ) + +class JgiContTypeEnum(EnumDefinitionImpl): + + plate = PermissibleValue(text="plate") + tube = PermissibleValue(text="tube") + + _defn = EnumDefinition( + name="JgiContTypeEnum", + ) + +class DnaSampleFormatEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + DNAStable = PermissibleValue(text="DNAStable", + description="placeholder PV descr") + Ethanol = PermissibleValue(text="Ethanol", + description="placeholder PV descr") + PBS = PermissibleValue(text="PBS", + description="placeholder PV descr") + Pellet = PermissibleValue(text="Pellet", + description="placeholder PV descr") + RNAStable = PermissibleValue(text="RNAStable", + description="placeholder PV descr") + TE = PermissibleValue(text="TE", + description="placeholder PV descr") + Water = PermissibleValue(text="Water", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="DnaSampleFormatEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "10 mM Tris-HCl", + PermissibleValue(text="10 mM Tris-HCl", + description="placeholder PV descr") ) + setattr(cls, "Low EDTA TE", + PermissibleValue(text="Low EDTA TE", + description="placeholder PV descr") ) + setattr(cls, "MDA reaction buffer", + PermissibleValue(text="MDA reaction buffer", + description="placeholder PV descr") ) + +class EcosystemCategoryEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + Terrestrial = PermissibleValue(text="Terrestrial", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="EcosystemCategoryEnum", + description="placeholder enum descr", + ) + +class EcosystemEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + Environmental = PermissibleValue(text="Environmental", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="EcosystemEnum", + description="placeholder enum descr", + ) + +class EcosystemSubtypeEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + Biocrust = PermissibleValue(text="Biocrust", + description="placeholder PV descr") + Biofilm = PermissibleValue(text="Biofilm", + description="placeholder PV descr") + Clay = PermissibleValue(text="Clay", + description="placeholder PV descr") + Floodplain = PermissibleValue(text="Floodplain", + description="placeholder PV descr") + Fossil = PermissibleValue(text="Fossil", + description="placeholder PV descr") + Glacier = PermissibleValue(text="Glacier", + description="placeholder PV descr") + Loam = PermissibleValue(text="Loam", + description="placeholder PV descr") + Pasture = PermissibleValue(text="Pasture", + description="placeholder PV descr") + Peat = PermissibleValue(text="Peat", + description="placeholder PV descr") + Ranch = PermissibleValue(text="Ranch", + description="placeholder PV descr") + Sand = PermissibleValue(text="Sand", + description="placeholder PV descr") + Silt = PermissibleValue(text="Silt", + description="placeholder PV descr") + Unclassified = PermissibleValue(text="Unclassified", + description="placeholder PV descr") + Watershed = PermissibleValue(text="Watershed", + description="placeholder PV descr") + Wetlands = PermissibleValue(text="Wetlands", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="EcosystemSubtypeEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Bulk soil", + PermissibleValue(text="Bulk soil", + description="placeholder PV descr") ) + setattr(cls, "Mineral horizon", + PermissibleValue(text="Mineral horizon", + description="placeholder PV descr") ) + setattr(cls, "Nature reserve", + PermissibleValue(text="Nature reserve", + description="placeholder PV descr") ) + setattr(cls, "Organic layer", + PermissibleValue(text="Organic layer", + description="placeholder PV descr") ) + setattr(cls, "Paddy field/soil", + PermissibleValue(text="Paddy field/soil", + description="placeholder PV descr") ) + setattr(cls, "Soil crust", + PermissibleValue(text="Soil crust", + description="placeholder PV descr") ) + +class EcosystemTypeEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + Soil = PermissibleValue(text="Soil", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="EcosystemTypeEnum", + description="placeholder enum descr", + ) + +class EnvPackageEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + soil = PermissibleValue(text="soil", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="EnvPackageEnum", + description="placeholder enum descr", + ) + +class GrowthFacilEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + experimental_garden = PermissibleValue(text="experimental_garden", + description="placeholder PV descr") + field = PermissibleValue(text="field", + description="placeholder PV descr") + field_incubation = PermissibleValue(text="field_incubation", + description="placeholder PV descr") + glasshouse = PermissibleValue(text="glasshouse", + description="placeholder PV descr") + greenhouse = PermissibleValue(text="greenhouse", + description="placeholder PV descr") + growth_chamber = PermissibleValue(text="growth_chamber", + description="placeholder PV descr") + lab_incubation = PermissibleValue(text="lab_incubation", + description="placeholder PV descr") + open_top_chamber = PermissibleValue(text="open_top_chamber", + description="placeholder PV descr") + other = PermissibleValue(text="other", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="GrowthFacilEnum", + description="placeholder enum descr", + ) + +class RelToOxygenEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + aerobe = PermissibleValue(text="aerobe", + description="placeholder PV descr") + anaerobe = PermissibleValue(text="anaerobe", + description="placeholder PV descr") + facultative = PermissibleValue(text="facultative", + description="placeholder PV descr") + microaerophilic = PermissibleValue(text="microaerophilic", + description="placeholder PV descr") + microanaerobe = PermissibleValue(text="microanaerobe", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="RelToOxygenEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "obligate aerobe", + PermissibleValue(text="obligate aerobe", + description="placeholder PV descr") ) + setattr(cls, "obligate anaerobe", + PermissibleValue(text="obligate anaerobe", + description="placeholder PV descr") ) + +class RnaSampleFormatEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + DNAStable = PermissibleValue(text="DNAStable", + description="placeholder PV descr") + Ethanol = PermissibleValue(text="Ethanol", + description="placeholder PV descr") + PBS = PermissibleValue(text="PBS", + description="placeholder PV descr") + Pellet = PermissibleValue(text="Pellet", + description="placeholder PV descr") + RNAStable = PermissibleValue(text="RNAStable", + description="placeholder PV descr") + TE = PermissibleValue(text="TE", + description="placeholder PV descr") + Water = PermissibleValue(text="Water", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="RnaSampleFormatEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "10 mM Tris-HCl", + PermissibleValue(text="10 mM Tris-HCl", + description="placeholder PV descr") ) + setattr(cls, "Low EDTA TE", + PermissibleValue(text="Low EDTA TE", + description="placeholder PV descr") ) + setattr(cls, "MDA reaction buffer", + PermissibleValue(text="MDA reaction buffer", + description="placeholder PV descr") ) + +class SampleTypeEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + soil = PermissibleValue(text="soil", + description="placeholder PV descr") + water_extract_soil = PermissibleValue(text="water_extract_soil", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="SampleTypeEnum", + description="placeholder enum descr", + ) + +class SpecificEcosystemEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + Agricultural = PermissibleValue(text="Agricultural", + description="placeholder PV descr") + Alpine = PermissibleValue(text="Alpine", + description="placeholder PV descr") + Bog = PermissibleValue(text="Bog", + description="placeholder PV descr") + Contaminated = PermissibleValue(text="Contaminated", + description="placeholder PV descr") + Desert = PermissibleValue(text="Desert", + description="placeholder PV descr") + Farm = PermissibleValue(text="Farm", + description="placeholder PV descr") + Grasslands = PermissibleValue(text="Grasslands", + description="placeholder PV descr") + Meadow = PermissibleValue(text="Meadow", + description="placeholder PV descr") + Mine = PermissibleValue(text="Mine", + description="placeholder PV descr") + Permafrost = PermissibleValue(text="Permafrost", + description="placeholder PV descr") + River = PermissibleValue(text="River", + description="placeholder PV descr") + Shrubland = PermissibleValue(text="Shrubland", + description="placeholder PV descr") + Unclassified = PermissibleValue(text="Unclassified", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="SpecificEcosystemEnum", + description="placeholder enum descr", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Agricultural land", + PermissibleValue(text="Agricultural land", + description="placeholder PV descr") ) + setattr(cls, "Agricultural soil", + PermissibleValue(text="Agricultural soil", + description="placeholder PV descr") ) + setattr(cls, "Boreal forest", + PermissibleValue(text="Boreal forest", + description="placeholder PV descr") ) + setattr(cls, "Forest soil", + PermissibleValue(text="Forest soil", + description="placeholder PV descr") ) + setattr(cls, "Forest Soil", + PermissibleValue(text="Forest Soil", + description="placeholder PV descr") ) + setattr(cls, "Mine drainage", + PermissibleValue(text="Mine drainage", + description="placeholder PV descr") ) + setattr(cls, "Oil-contaminated", + PermissibleValue(text="Oil-contaminated", + description="placeholder PV descr") ) + setattr(cls, "Orchard soil", + PermissibleValue(text="Orchard soil", + description="placeholder PV descr") ) + setattr(cls, "Riparian soil", + PermissibleValue(text="Riparian soil", + description="placeholder PV descr") ) + setattr(cls, "Tropical rainforest", + PermissibleValue(text="Tropical rainforest", + description="placeholder PV descr") ) + setattr(cls, "Uranium contaminated", + PermissibleValue(text="Uranium contaminated", + description="placeholder PV descr") ) + +class StoreCondEnum(EnumDefinitionImpl): + """ + placeholder enum descr + """ + fresh = PermissibleValue(text="fresh", + description="placeholder PV descr") + frozen = PermissibleValue(text="frozen", + description="placeholder PV descr") + lyophilized = PermissibleValue(text="lyophilized", + description="placeholder PV descr") + other = PermissibleValue(text="other", + description="placeholder PV descr") + + _defn = EnumDefinition( + name="StoreCondEnum", + description="placeholder enum descr", + ) + +class YesNoEnum(EnumDefinitionImpl): + """ + replaces DnaDnaseEnum and DnaseRnaEnum + """ + no = PermissibleValue(text="no") + yes = PermissibleValue(text="yes") + + _defn = EnumDefinition( + name="YesNoEnum", + description="replaces DnaDnaseEnum and DnaseRnaEnum", + ) + +class EnvBroadScaleSoilEnum(EnumDefinitionImpl): + """ + placeholder enum descr, DO NOT SORT + """ + _defn = EnumDefinition( + name="EnvBroadScaleSoilEnum", + description="placeholder enum descr, DO NOT SORT", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "arid biome [ENVO:01001838]", + PermissibleValue(text="arid biome [ENVO:01001838]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "subalpine biome [ENVO:01001837]", + PermissibleValue(text="subalpine biome [ENVO:01001837]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "montane biome [ENVO:01001836]", + PermissibleValue(text="montane biome [ENVO:01001836]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__montane savanna biome [ENVO:01000223]", + PermissibleValue(text="__montane savanna biome [ENVO:01000223]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__montane shrubland biome [ENVO:01000216]", + PermissibleValue(text="__montane shrubland biome [ENVO:01000216]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "alpine biome [ENVO:01001835]", + PermissibleValue(text="alpine biome [ENVO:01001835]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__alpine tundra biome [ENVO:01001505]", + PermissibleValue(text="__alpine tundra biome [ENVO:01001505]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "subpolar biome [ENVO:01001834]", + PermissibleValue(text="subpolar biome [ENVO:01001834]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "subtropical biome [ENVO:01001832]", + PermissibleValue(text="subtropical biome [ENVO:01001832]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__mediterranean biome [ENVO:01001833]", + PermissibleValue(text="__mediterranean biome [ENVO:01001833]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____mediterranean savanna biome [ENVO:01000229]", + PermissibleValue(text="____mediterranean savanna biome [ENVO:01000229]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____mediterranean shrubland biome [ENVO:01000217]", + PermissibleValue(text="____mediterranean shrubland biome [ENVO:01000217]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____mediterranean woodland biome [ENVO:01000208]", + PermissibleValue(text="____mediterranean woodland biome [ENVO:01000208]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__subtropical woodland biome [ENVO:01000222]", + PermissibleValue(text="__subtropical woodland biome [ENVO:01000222]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__subtropical shrubland biome [ENVO:01000213]", + PermissibleValue(text="__subtropical shrubland biome [ENVO:01000213]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__subtropical savanna biome [ENVO:01000187]", + PermissibleValue(text="__subtropical savanna biome [ENVO:01000187]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "temperate biome [ENVO:01001831]", + PermissibleValue(text="temperate biome [ENVO:01001831]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__temperate woodland biome [ENVO:01000221]", + PermissibleValue(text="__temperate woodland biome [ENVO:01000221]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__temperate shrubland biome [ENVO:01000215]", + PermissibleValue(text="__temperate shrubland biome [ENVO:01000215]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__temperate savanna biome [ENVO:01000189]", + PermissibleValue(text="__temperate savanna biome [ENVO:01000189]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "tropical biome [ENVO:01001830]", + PermissibleValue(text="tropical biome [ENVO:01001830]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__tropical woodland biome [ENVO:01000220]", + PermissibleValue(text="__tropical woodland biome [ENVO:01000220]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__tropical shrubland biome [ENVO:01000214]", + PermissibleValue(text="__tropical shrubland biome [ENVO:01000214]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__tropical savanna biome [ENVO:01000188]", + PermissibleValue(text="__tropical savanna biome [ENVO:01000188]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "polar biome [ENVO:01000339]", + PermissibleValue(text="polar biome [ENVO:01000339]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "terrestrial biome [ENVO:00000446]", + PermissibleValue(text="terrestrial biome [ENVO:00000446]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__anthropogenic terrestrial biome [ENVO:01000219]", + PermissibleValue(text="__anthropogenic terrestrial biome [ENVO:01000219]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____dense settlement biome [ENVO:01000248]", + PermissibleValue(text="____dense settlement biome [ENVO:01000248]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______urban biome [ENVO:01000249]", + PermissibleValue(text="______urban biome [ENVO:01000249]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____rangeland biome [ENVO:01000247]", + PermissibleValue(text="____rangeland biome [ENVO:01000247]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____village biome [ENVO:01000246]", + PermissibleValue(text="____village biome [ENVO:01000246]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__mangrove biome [ENVO:01000181]", + PermissibleValue(text="__mangrove biome [ENVO:01000181]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__tundra biome [ENVO:01000180]", + PermissibleValue(text="__tundra biome [ENVO:01000180]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____alpine tundra biome [ENVO:01001505]", + PermissibleValue(text="____alpine tundra biome [ENVO:01001505]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__shrubland biome [ENVO:01000176]", + PermissibleValue(text="__shrubland biome [ENVO:01000176]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____tidal mangrove shrubland [ENVO:01001369]", + PermissibleValue(text="____tidal mangrove shrubland [ENVO:01001369]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____xeric shrubland biome [ENVO:01000218]", + PermissibleValue(text="____xeric shrubland biome [ENVO:01000218]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____montane shrubland biome [ENVO:01000216]", + PermissibleValue(text="____montane shrubland biome [ENVO:01000216]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____temperate shrubland biome [ENVO:01000215]", + PermissibleValue(text="____temperate shrubland biome [ENVO:01000215]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____tropical shrubland biome [ENVO:01000214]", + PermissibleValue(text="____tropical shrubland biome [ENVO:01000214]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____subtropical shrubland biome [ENVO:01000213]", + PermissibleValue(text="____subtropical shrubland biome [ENVO:01000213]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______mediterranean shrubland biome [ENVO:01000217]", + PermissibleValue(text="______mediterranean shrubland biome [ENVO:01000217]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__woodland biome [ENVO:01000175]", + PermissibleValue(text="__woodland biome [ENVO:01000175]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____subtropical woodland biome [ENVO:01000222]", + PermissibleValue(text="____subtropical woodland biome [ENVO:01000222]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______mediterranean woodland biome [ENVO:01000208]", + PermissibleValue(text="______mediterranean woodland biome [ENVO:01000208]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____temperate woodland biome [ENVO:01000221]", + PermissibleValue(text="____temperate woodland biome [ENVO:01000221]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____tropical woodland biome [ENVO:01000220]", + PermissibleValue(text="____tropical woodland biome [ENVO:01000220]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____savanna biome [ENVO:01000178]", + PermissibleValue(text="____savanna biome [ENVO:01000178]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______montane savanna biome [ENVO:01000223]", + PermissibleValue(text="______montane savanna biome [ENVO:01000223]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______flooded savanna biome [ENVO:01000190]", + PermissibleValue(text="______flooded savanna biome [ENVO:01000190]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______temperate savanna biome [ENVO:01000189]", + PermissibleValue(text="______temperate savanna biome [ENVO:01000189]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______tropical savanna biome [ENVO:01000188]", + PermissibleValue(text="______tropical savanna biome [ENVO:01000188]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______subtropical savanna biome [ENVO:01000187]", + PermissibleValue(text="______subtropical savanna biome [ENVO:01000187]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________mediterranean savanna biome [ENVO:01000229]", + PermissibleValue(text="________mediterranean savanna biome [ENVO:01000229]", + description="placeholder PV descr, DO NOT SORT") ) + +class EnvMediumSoilEnum(EnumDefinitionImpl): + """ + placeholder enum descr, DO NOT SORT + """ + _defn = EnumDefinition( + name="EnvMediumSoilEnum", + description="placeholder enum descr, DO NOT SORT", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "pathogen-suppressive soil [ENVO:03600036]", + PermissibleValue(text="pathogen-suppressive soil [ENVO:03600036]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "mangrove biome soil [ENVO:02000138]", + PermissibleValue(text="mangrove biome soil [ENVO:02000138]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "surface soil [ENVO:02000059]", + PermissibleValue(text="surface soil [ENVO:02000059]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "frost-susceptible soil [ENVO:01001638]", + PermissibleValue(text="frost-susceptible soil [ENVO:01001638]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "bare soil [ENVO:01001616]", + PermissibleValue(text="bare soil [ENVO:01001616]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "frozen soil [ENVO:01001526]", + PermissibleValue(text="frozen soil [ENVO:01001526]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__friable-frozen soil [ENVO:01001528]", + PermissibleValue(text="__friable-frozen soil [ENVO:01001528]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__plastic-frozen soil [ENVO:01001527]", + PermissibleValue(text="__plastic-frozen soil [ENVO:01001527]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__hard-frozen soil [ENVO:01001525]", + PermissibleValue(text="__hard-frozen soil [ENVO:01001525]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__frozen compost soil [ENVO:00005765]", + PermissibleValue(text="__frozen compost soil [ENVO:00005765]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__cryosol [ENVO:00002236]", + PermissibleValue(text="__cryosol [ENVO:00002236]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "ultisol [ENVO:01001397]", + PermissibleValue(text="ultisol [ENVO:01001397]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__acrisol [ENVO:00002234]", + PermissibleValue(text="__acrisol [ENVO:00002234]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "acidic soil [ENVO:01001185]", + PermissibleValue(text="acidic soil [ENVO:01001185]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "bulk soil [ENVO:00005802]", + PermissibleValue(text="bulk soil [ENVO:00005802]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "red soil [ENVO:00005790]", + PermissibleValue(text="red soil [ENVO:00005790]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "upland soil [ENVO:00005786]", + PermissibleValue(text="upland soil [ENVO:00005786]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__mountain forest soil [ENVO:00005769]", + PermissibleValue(text="__mountain forest soil [ENVO:00005769]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__dune soil [ENVO:00002260]", + PermissibleValue(text="__dune soil [ENVO:00002260]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "ornithogenic soil [ENVO:00005782]", + PermissibleValue(text="ornithogenic soil [ENVO:00005782]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "heat stressed soil [ENVO:00005781]", + PermissibleValue(text="heat stressed soil [ENVO:00005781]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "greenhouse soil [ENVO:00005780]", + PermissibleValue(text="greenhouse soil [ENVO:00005780]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "tropical soil [ENVO:00005778]", + PermissibleValue(text="tropical soil [ENVO:00005778]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "pasture soil [ENVO:00005773]", + PermissibleValue(text="pasture soil [ENVO:00005773]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "muddy soil [ENVO:00005771]", + PermissibleValue(text="muddy soil [ENVO:00005771]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "orchid soil [ENVO:00005768]", + PermissibleValue(text="orchid soil [ENVO:00005768]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "manured soil [ENVO:00005767]", + PermissibleValue(text="manured soil [ENVO:00005767]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "limed soil [ENVO:00005766]", + PermissibleValue(text="limed soil [ENVO:00005766]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "pond soil [ENVO:00005764]", + PermissibleValue(text="pond soil [ENVO:00005764]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "meadow soil [ENVO:00005761]", + PermissibleValue(text="meadow soil [ENVO:00005761]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "burned soil [ENVO:00005760]", + PermissibleValue(text="burned soil [ENVO:00005760]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "lawn soil [ENVO:00005756]", + PermissibleValue(text="lawn soil [ENVO:00005756]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "field soil [ENVO:00005755]", + PermissibleValue(text="field soil [ENVO:00005755]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__paddy field soil [ENVO:00005740]", + PermissibleValue(text="__paddy field soil [ENVO:00005740]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____peaty paddy field soil [ENVO:00005776]", + PermissibleValue(text="____peaty paddy field soil [ENVO:00005776]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____alluvial paddy field soil [ENVO:00005759]", + PermissibleValue(text="____alluvial paddy field soil [ENVO:00005759]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "fertilized soil [ENVO:00005754]", + PermissibleValue(text="fertilized soil [ENVO:00005754]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "sawah soil [ENVO:00005752]", + PermissibleValue(text="sawah soil [ENVO:00005752]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "jungle soil [ENVO:00005751]", + PermissibleValue(text="jungle soil [ENVO:00005751]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "grassland soil [ENVO:00005750]", + PermissibleValue(text="grassland soil [ENVO:00005750]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__steppe soil [ENVO:00005777]", + PermissibleValue(text="__steppe soil [ENVO:00005777]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__savanna soil [ENVO:00005746]", + PermissibleValue(text="__savanna soil [ENVO:00005746]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "farm soil [ENVO:00005749]", + PermissibleValue(text="farm soil [ENVO:00005749]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__rubber plantation soil [ENVO:00005788]", + PermissibleValue(text="__rubber plantation soil [ENVO:00005788]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__orchard soil [ENVO:00005772]", + PermissibleValue(text="__orchard soil [ENVO:00005772]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "dry soil [ENVO:00005748]", + PermissibleValue(text="dry soil [ENVO:00005748]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "compost soil [ENVO:00005747]", + PermissibleValue(text="compost soil [ENVO:00005747]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "roadside soil [ENVO:00005743]", + PermissibleValue(text="roadside soil [ENVO:00005743]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "arable soil [ENVO:00005742]", + PermissibleValue(text="arable soil [ENVO:00005742]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "alpine soil [ENVO:00005741]", + PermissibleValue(text="alpine soil [ENVO:00005741]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "alluvial soil [ENVO:00002871]", + PermissibleValue(text="alluvial soil [ENVO:00002871]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__alluvial paddy field soil [ENVO:00005759]", + PermissibleValue(text="__alluvial paddy field soil [ENVO:00005759]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__alluvial swamp soil [ENVO:00005758]", + PermissibleValue(text="__alluvial swamp soil [ENVO:00005758]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "technosol [ENVO:00002275]", + PermissibleValue(text="technosol [ENVO:00002275]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "stagnosol [ENVO:00002274]", + PermissibleValue(text="stagnosol [ENVO:00002274]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "fluvisol [ENVO:00002273]", + PermissibleValue(text="fluvisol [ENVO:00002273]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "garden soil [ENVO:00002263]", + PermissibleValue(text="garden soil [ENVO:00002263]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__vegetable garden soil [ENVO:00005779]", + PermissibleValue(text="__vegetable garden soil [ENVO:00005779]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__allotment garden soil [ENVO:00005744]", + PermissibleValue(text="__allotment garden soil [ENVO:00005744]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "clay soil [ENVO:00002262]", + PermissibleValue(text="clay soil [ENVO:00002262]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "forest soil [ENVO:00002261]", + PermissibleValue(text="forest soil [ENVO:00002261]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__eucalyptus forest soil [ENVO:00005787]", + PermissibleValue(text="__eucalyptus forest soil [ENVO:00005787]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__spruce forest soil [ENVO:00005784]", + PermissibleValue(text="__spruce forest soil [ENVO:00005784]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__leafy wood soil [ENVO:00005783]", + PermissibleValue(text="__leafy wood soil [ENVO:00005783]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__beech forest soil [ENVO:00005770]", + PermissibleValue(text="__beech forest soil [ENVO:00005770]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "agricultural soil [ENVO:00002259]", + PermissibleValue(text="agricultural soil [ENVO:00002259]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__bluegrass field soil [ENVO:00005789]", + PermissibleValue(text="__bluegrass field soil [ENVO:00005789]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "loam [ENVO:00002258]", + PermissibleValue(text="loam [ENVO:00002258]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__clay loam [ENVO:06105277]", + PermissibleValue(text="__clay loam [ENVO:06105277]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____silty clay loam [ENVO:06105278]", + PermissibleValue(text="____silty clay loam [ENVO:06105278]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____sandy clay loam [ENVO:06105276]", + PermissibleValue(text="____sandy clay loam [ENVO:06105276]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__silty loam [ENVO:06105275]", + PermissibleValue(text="__silty loam [ENVO:06105275]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__sandy loam [ENVO:06105274]", + PermissibleValue(text="__sandy loam [ENVO:06105274]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "podzol [ENVO:00002257]", + PermissibleValue(text="podzol [ENVO:00002257]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "regosol [ENVO:00002256]", + PermissibleValue(text="regosol [ENVO:00002256]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "solonetz [ENVO:00002255]", + PermissibleValue(text="solonetz [ENVO:00002255]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "vertisol [ENVO:00002254]", + PermissibleValue(text="vertisol [ENVO:00002254]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "umbrisol [ENVO:00002253]", + PermissibleValue(text="umbrisol [ENVO:00002253]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "solonchak [ENVO:00002252]", + PermissibleValue(text="solonchak [ENVO:00002252]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "planosol [ENVO:00002251]", + PermissibleValue(text="planosol [ENVO:00002251]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "plinthosol [ENVO:00002250]", + PermissibleValue(text="plinthosol [ENVO:00002250]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "phaeozem [ENVO:00002249]", + PermissibleValue(text="phaeozem [ENVO:00002249]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "luvisol [ENVO:00002248]", + PermissibleValue(text="luvisol [ENVO:00002248]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "nitisol [ENVO:00002247]", + PermissibleValue(text="nitisol [ENVO:00002247]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "ferralsol [ENVO:00002246]", + PermissibleValue(text="ferralsol [ENVO:00002246]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "gypsisol [ENVO:00002245]", + PermissibleValue(text="gypsisol [ENVO:00002245]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "gleysol [ENVO:00002244]", + PermissibleValue(text="gleysol [ENVO:00002244]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "histosol [ENVO:00002243]", + PermissibleValue(text="histosol [ENVO:00002243]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__peat soil [ENVO:00005774]", + PermissibleValue(text="__peat soil [ENVO:00005774]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "lixisol [ENVO:00002242]", + PermissibleValue(text="lixisol [ENVO:00002242]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "leptosol [ENVO:00002241]", + PermissibleValue(text="leptosol [ENVO:00002241]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "kastanozem [ENVO:00002240]", + PermissibleValue(text="kastanozem [ENVO:00002240]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "calcisol [ENVO:00002239]", + PermissibleValue(text="calcisol [ENVO:00002239]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "durisol [ENVO:00002238]", + PermissibleValue(text="durisol [ENVO:00002238]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "chernozem [ENVO:00002237]", + PermissibleValue(text="chernozem [ENVO:00002237]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "cambisol [ENVO:00002235]", + PermissibleValue(text="cambisol [ENVO:00002235]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "albeluvisol [ENVO:00002233]", + PermissibleValue(text="albeluvisol [ENVO:00002233]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "andosol [ENVO:00002232]", + PermissibleValue(text="andosol [ENVO:00002232]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__volcanic soil [ENVO:01001841]", + PermissibleValue(text="__volcanic soil [ENVO:01001841]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "alisol [ENVO:00002231]", + PermissibleValue(text="alisol [ENVO:00002231]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "anthrosol [ENVO:00002230]", + PermissibleValue(text="anthrosol [ENVO:00002230]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "arenosol [ENVO:00002229]", + PermissibleValue(text="arenosol [ENVO:00002229]", + description="placeholder PV descr, DO NOT SORT") ) + +class EnvLocalScaleSoilEnum(EnumDefinitionImpl): + """ + placeholder enum descr, DO NOT SORT + """ + _defn = EnumDefinition( + name="EnvLocalScaleSoilEnum", + description="placeholder enum descr, DO NOT SORT", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "astronomical body part [ENVO:01000813]", + PermissibleValue(text="astronomical body part [ENVO:01000813]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__coast [ENVO:01000687]", + PermissibleValue(text="__coast [ENVO:01000687]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__solid astronomical body part [ENVO:00000191]", + PermissibleValue(text="__solid astronomical body part [ENVO:00000191]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______landform [ENVO:01001886]", + PermissibleValue(text="______landform [ENVO:01001886]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______channel [ENVO:03000117]", + PermissibleValue(text="______channel [ENVO:03000117]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________tunnel [ENVO:00000068]", + PermissibleValue(text="________tunnel [ENVO:00000068]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______surface landform [ENVO:01001884]", + PermissibleValue(text="______surface landform [ENVO:01001884]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________desert [ENVO:01001357]", + PermissibleValue(text="________desert [ENVO:01001357]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________outcrop [ENVO:01000302]", + PermissibleValue(text="________outcrop [ENVO:01000302]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________boulder field [ENVO:00000537]", + PermissibleValue(text="________boulder field [ENVO:00000537]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________landfill [ENVO:00000533]", + PermissibleValue(text="________landfill [ENVO:00000533]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________hummock [ENVO:00000516]", + PermissibleValue(text="________hummock [ENVO:00000516]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________terrace [ENVO:00000508]", + PermissibleValue(text="________terrace [ENVO:00000508]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________peninsula [ENVO:00000305]", + PermissibleValue(text="________peninsula [ENVO:00000305]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________shore [ENVO:00000304]", + PermissibleValue(text="________shore [ENVO:00000304]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________lake shore [ENVO:00000382]", + PermissibleValue(text="__________lake shore [ENVO:00000382]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________dry lake [ENVO:00000277]", + PermissibleValue(text="________dry lake [ENVO:00000277]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________karst [ENVO:00000175]", + PermissibleValue(text="________karst [ENVO:00000175]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________isthmus [ENVO:00000174]", + PermissibleValue(text="________isthmus [ENVO:00000174]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________badland [ENVO:00000127]", + PermissibleValue(text="________badland [ENVO:00000127]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________volcanic feature [ENVO:00000094]", + PermissibleValue(text="________volcanic feature [ENVO:00000094]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________volcanic cone [ENVO:00000398]", + PermissibleValue(text="__________volcanic cone [ENVO:00000398]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________tuff cone [ENVO:01000664]", + PermissibleValue(text="____________tuff cone [ENVO:01000664]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________beach [ENVO:00000091]", + PermissibleValue(text="________beach [ENVO:00000091]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________plain [ENVO:00000086]", + PermissibleValue(text="________plain [ENVO:00000086]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________cave [ENVO:00000067]", + PermissibleValue(text="________cave [ENVO:00000067]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________spring [ENVO:00000027]", + PermissibleValue(text="________spring [ENVO:00000027]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______slope [ENVO:00002000]", + PermissibleValue(text="______slope [ENVO:00002000]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________talus slope [ENVO:01000334]", + PermissibleValue(text="________talus slope [ENVO:01000334]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________hillside [ENVO:01000333]", + PermissibleValue(text="________hillside [ENVO:01000333]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________levee [ENVO:00000178]", + PermissibleValue(text="________levee [ENVO:00000178]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________bank [ENVO:00000141]", + PermissibleValue(text="________bank [ENVO:00000141]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________cliff [ENVO:00000087]", + PermissibleValue(text="________cliff [ENVO:00000087]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______peak [ENVO:00000480]", + PermissibleValue(text="______peak [ENVO:00000480]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______depressed landform [ENVO:00000309]", + PermissibleValue(text="______depressed landform [ENVO:00000309]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________geographic basin [ENVO:03000015]", + PermissibleValue(text="________geographic basin [ENVO:03000015]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________valley [ENVO:00000100]", + PermissibleValue(text="__________valley [ENVO:00000100]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________canyon [ENVO:00000169]", + PermissibleValue(text="____________canyon [ENVO:00000169]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________dry valley [ENVO:00000128]", + PermissibleValue(text="____________dry valley [ENVO:00000128]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________glacial valley [ENVO:00000248]", + PermissibleValue(text="____________glacial valley [ENVO:00000248]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________pit [ENVO:01001871]", + PermissibleValue(text="________pit [ENVO:01001871]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________trench [ENVO:01000649]", + PermissibleValue(text="________trench [ENVO:01000649]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________swale [ENVO:00000543]", + PermissibleValue(text="________swale [ENVO:00000543]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________crater [ENVO:00000514]", + PermissibleValue(text="________crater [ENVO:00000514]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________impact crater [ENVO:01001071]", + PermissibleValue(text="__________impact crater [ENVO:01001071]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________volcanic crater [ENVO:00000246]", + PermissibleValue(text="__________volcanic crater [ENVO:00000246]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________caldera [ENVO:00000096]", + PermissibleValue(text="__________caldera [ENVO:00000096]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________channel of a watercourse [ENVO:00000395]", + PermissibleValue(text="________channel of a watercourse [ENVO:00000395]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________strait [ENVO:00000394]", + PermissibleValue(text="__________strait [ENVO:00000394]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________dry stream [ENVO:00000278]", + PermissibleValue(text="__________dry stream [ENVO:00000278]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________dry river [ENVO:01000995]", + PermissibleValue(text="____________dry river [ENVO:01000995]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________artificial channel [ENVO:00000121]", + PermissibleValue(text="__________artificial channel [ENVO:00000121]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________plumbing drain [ENVO:01000924]", + PermissibleValue(text="____________plumbing drain [ENVO:01000924]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________ditch [ENVO:00000037]", + PermissibleValue(text="____________ditch [ENVO:00000037]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________sinkhole [ENVO:00000195]", + PermissibleValue(text="________sinkhole [ENVO:00000195]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______elevated landform [ENVO:00000176]", + PermissibleValue(text="______elevated landform [ENVO:00000176]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________flattened elevation [ENVO:01001491]", + PermissibleValue(text="________flattened elevation [ENVO:01001491]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________butte [ENVO:00000287]", + PermissibleValue(text="__________butte [ENVO:00000287]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________plateau [ENVO:00000182]", + PermissibleValue(text="__________plateau [ENVO:00000182]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________mesa [ENVO:00000179]", + PermissibleValue(text="__________mesa [ENVO:00000179]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________pinnacle [ENVO:00000481]", + PermissibleValue(text="________pinnacle [ENVO:00000481]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________mount [ENVO:00000477]", + PermissibleValue(text="________mount [ENVO:00000477]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________hill [ENVO:00000083]", + PermissibleValue(text="__________hill [ENVO:00000083]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____________dune [ENVO:00000170]", + PermissibleValue(text="____________dune [ENVO:00000170]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__________mountain [ENVO:00000081]", + PermissibleValue(text="__________mountain [ENVO:00000081]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________ridge [ENVO:00000283]", + PermissibleValue(text="________ridge [ENVO:00000283]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____part of a landmass [ENVO:01001781]", + PermissibleValue(text="____part of a landmass [ENVO:01001781]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______peninsula [ENVO:00000305]", + PermissibleValue(text="______peninsula [ENVO:00000305]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____geological fracture [ENVO:01000667]", + PermissibleValue(text="____geological fracture [ENVO:01000667]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______vein [ENVO:01000670]", + PermissibleValue(text="______vein [ENVO:01000670]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______geological fault [ENVO:01000668]", + PermissibleValue(text="______geological fault [ENVO:01000668]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________active geological fault [ENVO:01000669]", + PermissibleValue(text="________active geological fault [ENVO:01000669]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______volcano [ENVO:00000247]", + PermissibleValue(text="______volcano [ENVO:00000247]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__field [ENVO:01000352]", + PermissibleValue(text="__field [ENVO:01000352]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____lava field [ENVO:01000437]", + PermissibleValue(text="____lava field [ENVO:01000437]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____gravel field [ENVO:00000548]", + PermissibleValue(text="____gravel field [ENVO:00000548]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____woodland clearing [ENVO:00000444]", + PermissibleValue(text="____woodland clearing [ENVO:00000444]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____agricultural field [ENVO:00000114]", + PermissibleValue(text="____agricultural field [ENVO:00000114]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____snow field [ENVO:00000146]", + PermissibleValue(text="____snow field [ENVO:00000146]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "__geographic feature [ENVO:00000000]", + PermissibleValue(text="__geographic feature [ENVO:00000000]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____hydrographic feature [ENVO:00000012]", + PermissibleValue(text="____hydrographic feature [ENVO:00000012]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______reef [ENVO:01001899]", + PermissibleValue(text="______reef [ENVO:01001899]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______inlet [ENVO:00000475]", + PermissibleValue(text="______inlet [ENVO:00000475]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______bar [ENVO:00000167]", + PermissibleValue(text="______bar [ENVO:00000167]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________tombolo [ENVO:00000420]", + PermissibleValue(text="________tombolo [ENVO:00000420]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "____anthropogenic geographic feature [ENVO:00000002]", + PermissibleValue(text="____anthropogenic geographic feature [ENVO:00000002]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______yard [ENVO:03600053]", + PermissibleValue(text="______yard [ENVO:03600053]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "________residential backyard [ENVO:03600033]", + PermissibleValue(text="________residential backyard [ENVO:03600033]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______market [ENVO:01000987]", + PermissibleValue(text="______market [ENVO:01000987]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______park [ENVO:00000562]", + PermissibleValue(text="______park [ENVO:00000562]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______well [ENVO:00000026]", + PermissibleValue(text="______well [ENVO:00000026]", + description="placeholder PV descr, DO NOT SORT") ) + setattr(cls, "______garden [ENVO:00000011]", + PermissibleValue(text="______garden [ENVO:00000011]", + description="placeholder PV descr, DO NOT SORT") ) + +class OxyStatSampEnum(EnumDefinitionImpl): + """ + placeholder enum descr, DO NOT SORT + """ + aerobic = PermissibleValue(text="aerobic", + description="placeholder PV descr, DO NOT SORT") + anaerobic = PermissibleValue(text="anaerobic", + description="placeholder PV descr, DO NOT SORT") + other = PermissibleValue(text="other", + description="placeholder PV descr, DO NOT SORT") + + _defn = EnumDefinition( + name="OxyStatSampEnum", + description="placeholder enum descr, DO NOT SORT", + ) + +class WindowMatEnum(EnumDefinitionImpl): + + clad = PermissibleValue(text="clad") + fiberglass = PermissibleValue(text="fiberglass") + metal = PermissibleValue(text="metal") + vinyl = PermissibleValue(text="vinyl") + wood = PermissibleValue(text="wood") + + _defn = EnumDefinition( + name="WindowMatEnum", + ) + +class SubstructureTypeEnum(EnumDefinitionImpl): + + crawlspace = PermissibleValue(text="crawlspace") + basement = PermissibleValue(text="basement") + + _defn = EnumDefinition( + name="SubstructureTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "slab on grade", + PermissibleValue(text="slab on grade") ) + +class FilterTypeEnum(EnumDefinitionImpl): + + HEPA = PermissibleValue(text="HEPA") + electrostatic = PermissibleValue(text="electrostatic") + + _defn = EnumDefinition( + name="FilterTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "particulate air filter", + PermissibleValue(text="particulate air filter") ) + setattr(cls, "chemical air filter", + PermissibleValue(text="chemical air filter") ) + setattr(cls, "low-MERV pleated media", + PermissibleValue(text="low-MERV pleated media") ) + setattr(cls, "gas-phase or ultraviolet air treatments", + PermissibleValue(text="gas-phase or ultraviolet air treatments") ) + +class WeekdayEnum(EnumDefinitionImpl): + + Monday = PermissibleValue(text="Monday") + Tuesday = PermissibleValue(text="Tuesday") + Wednesday = PermissibleValue(text="Wednesday") + Thursday = PermissibleValue(text="Thursday") + Friday = PermissibleValue(text="Friday") + Saturday = PermissibleValue(text="Saturday") + Sunday = PermissibleValue(text="Sunday") + + _defn = EnumDefinition( + name="WeekdayEnum", + ) + +class TrainLineEnum(EnumDefinitionImpl): + + red = PermissibleValue(text="red") + green = PermissibleValue(text="green") + orange = PermissibleValue(text="orange") + + _defn = EnumDefinition( + name="TrainLineEnum", + ) + +class DoorDirectEnum(EnumDefinitionImpl): + + inward = PermissibleValue(text="inward") + outward = PermissibleValue(text="outward") + sideways = PermissibleValue(text="sideways") + + _defn = EnumDefinition( + name="DoorDirectEnum", + ) + +class FurnitureEnum(EnumDefinitionImpl): + + cabinet = PermissibleValue(text="cabinet") + chair = PermissibleValue(text="chair") + desks = PermissibleValue(text="desks") + + _defn = EnumDefinition( + name="FurnitureEnum", + ) + +class OccupDocumentEnum(EnumDefinitionImpl): + + estimate = PermissibleValue(text="estimate") + videos = PermissibleValue(text="videos") + + _defn = EnumDefinition( + name="OccupDocumentEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "automated count", + PermissibleValue(text="automated count") ) + setattr(cls, "manual count", + PermissibleValue(text="manual count") ) + +class WindowHorizPosEnum(EnumDefinitionImpl): + + left = PermissibleValue(text="left") + middle = PermissibleValue(text="middle") + right = PermissibleValue(text="right") + + _defn = EnumDefinition( + name="WindowHorizPosEnum", + ) + +class WindowCoverEnum(EnumDefinitionImpl): + + blinds = PermissibleValue(text="blinds") + curtains = PermissibleValue(text="curtains") + none = PermissibleValue(text="none") + + _defn = EnumDefinition( + name="WindowCoverEnum", + ) + +class ShadingDeviceCondEnum(EnumDefinitionImpl): + + damaged = PermissibleValue(text="damaged") + new = PermissibleValue(text="new") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="ShadingDeviceCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + +class IntWallCondEnum(EnumDefinitionImpl): + + new = PermissibleValue(text="new") + damaged = PermissibleValue(text="damaged") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="IntWallCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + +class LightTypeEnum(EnumDefinitionImpl): + + none = PermissibleValue(text="none") + + _defn = EnumDefinition( + name="LightTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "natural light", + PermissibleValue(text="natural light") ) + setattr(cls, "electric light", + PermissibleValue(text="electric light") ) + setattr(cls, "desk lamp", + PermissibleValue(text="desk lamp") ) + setattr(cls, "flourescent lights", + PermissibleValue(text="flourescent lights") ) + +class ExtWindowOrientEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + northeast = PermissibleValue(text="northeast") + southeast = PermissibleValue(text="southeast") + southwest = PermissibleValue(text="southwest") + northwest = PermissibleValue(text="northwest") + + _defn = EnumDefinition( + name="ExtWindowOrientEnum", + ) + +class ArchStrucEnum(EnumDefinitionImpl): + + building = PermissibleValue(text="building") + shed = PermissibleValue(text="shed") + home = PermissibleValue(text="home") + + _defn = EnumDefinition( + name="ArchStrucEnum", + ) + +class FloorStrucEnum(EnumDefinitionImpl): + + balcony = PermissibleValue(text="balcony") + concrete = PermissibleValue(text="concrete") + + _defn = EnumDefinition( + name="FloorStrucEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "floating floor", + PermissibleValue(text="floating floor") ) + setattr(cls, "glass floor", + PermissibleValue(text="glass floor") ) + setattr(cls, "raised floor", + PermissibleValue(text="raised floor") ) + setattr(cls, "sprung floor", + PermissibleValue(text="sprung floor") ) + setattr(cls, "wood-framed", + PermissibleValue(text="wood-framed") ) + +class HandidnessEnum(EnumDefinitionImpl): + + ambidexterity = PermissibleValue(text="ambidexterity") + + _defn = EnumDefinition( + name="HandidnessEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "left handedness", + PermissibleValue(text="left handedness") ) + setattr(cls, "mixed-handedness", + PermissibleValue(text="mixed-handedness") ) + setattr(cls, "right handedness", + PermissibleValue(text="right handedness") ) + +class WallSurfTreatmentEnum(EnumDefinitionImpl): + + painted = PermissibleValue(text="painted") + paneling = PermissibleValue(text="paneling") + stucco = PermissibleValue(text="stucco") + fabric = PermissibleValue(text="fabric") + + _defn = EnumDefinition( + name="WallSurfTreatmentEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "wall paper", + PermissibleValue(text="wall paper") ) + setattr(cls, "no treatment", + PermissibleValue(text="no treatment") ) + +class SpecificEnum(EnumDefinitionImpl): + + operation = PermissibleValue(text="operation") + construction = PermissibleValue(text="construction") + bid = PermissibleValue(text="bid") + design = PermissibleValue(text="design") + photos = PermissibleValue(text="photos") + + _defn = EnumDefinition( + name="SpecificEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "as built", + PermissibleValue(text="as built") ) + +class WindowLocEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + + _defn = EnumDefinition( + name="WindowLocEnum", + ) + +class BuildingSettingEnum(EnumDefinitionImpl): + + urban = PermissibleValue(text="urban") + suburban = PermissibleValue(text="suburban") + exurban = PermissibleValue(text="exurban") + rural = PermissibleValue(text="rural") + + _defn = EnumDefinition( + name="BuildingSettingEnum", + ) + +class SampFloorEnum(EnumDefinitionImpl): + + basement = PermissibleValue(text="basement") + lobby = PermissibleValue(text="lobby") + + _defn = EnumDefinition( + name="SampFloorEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "1st floor", + PermissibleValue(text="1st floor") ) + setattr(cls, "2nd floor", + PermissibleValue(text="2nd floor") ) + +class VisMediaEnum(EnumDefinitionImpl): + + photos = PermissibleValue(text="photos") + videos = PermissibleValue(text="videos") + interiors = PermissibleValue(text="interiors") + equipment = PermissibleValue(text="equipment") + + _defn = EnumDefinition( + name="VisMediaEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "commonly of the building", + PermissibleValue(text="commonly of the building") ) + setattr(cls, "site context (adjacent buildings, vegetation, terrain, streets)", + PermissibleValue(text="site context (adjacent buildings, vegetation, terrain, streets)") ) + setattr(cls, "3D scans", + PermissibleValue(text="3D scans") ) + +class IndoorSpaceEnum(EnumDefinitionImpl): + + bedroom = PermissibleValue(text="bedroom") + office = PermissibleValue(text="office") + bathroom = PermissibleValue(text="bathroom") + foyer = PermissibleValue(text="foyer") + kitchen = PermissibleValue(text="kitchen") + hallway = PermissibleValue(text="hallway") + elevator = PermissibleValue(text="elevator") + + _defn = EnumDefinition( + name="IndoorSpaceEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "locker room", + PermissibleValue(text="locker room") ) + +class CeilTextureEnum(EnumDefinitionImpl): + + knockdown = PermissibleValue(text="knockdown") + popcorn = PermissibleValue(text="popcorn") + smooth = PermissibleValue(text="smooth") + swirl = PermissibleValue(text="swirl") + + _defn = EnumDefinition( + name="CeilTextureEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "crows feet", + PermissibleValue(text="crows feet") ) + setattr(cls, "crows-foot stomp", + PermissibleValue(text="crows-foot stomp") ) + setattr(cls, "double skip", + PermissibleValue(text="double skip") ) + setattr(cls, "hawk and trowel", + PermissibleValue(text="hawk and trowel") ) + setattr(cls, "orange peel", + PermissibleValue(text="orange peel") ) + setattr(cls, "rosebud stomp", + PermissibleValue(text="rosebud stomp") ) + setattr(cls, "Santa-Fe texture", + PermissibleValue(text="Santa-Fe texture") ) + setattr(cls, "skip trowel", + PermissibleValue(text="skip trowel") ) + setattr(cls, "stomp knockdown", + PermissibleValue(text="stomp knockdown") ) + +class DoorMoveEnum(EnumDefinitionImpl): + + collapsible = PermissibleValue(text="collapsible") + folding = PermissibleValue(text="folding") + revolving = PermissibleValue(text="revolving") + sliding = PermissibleValue(text="sliding") + swinging = PermissibleValue(text="swinging") + + _defn = EnumDefinition( + name="DoorMoveEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "rolling shutter", + PermissibleValue(text="rolling shutter") ) + +class DoorCompTypeEnum(EnumDefinitionImpl): + + revolving = PermissibleValue(text="revolving") + sliding = PermissibleValue(text="sliding") + telescopic = PermissibleValue(text="telescopic") + + _defn = EnumDefinition( + name="DoorCompTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "metal covered", + PermissibleValue(text="metal covered") ) + +class WallTextureEnum(EnumDefinitionImpl): + + knockdown = PermissibleValue(text="knockdown") + popcorn = PermissibleValue(text="popcorn") + smooth = PermissibleValue(text="smooth") + swirl = PermissibleValue(text="swirl") + + _defn = EnumDefinition( + name="WallTextureEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "crows feet", + PermissibleValue(text="crows feet") ) + setattr(cls, "crows-foot stomp", + PermissibleValue(text="crows-foot stomp") ) + setattr(cls, "", + PermissibleValue(text="") ) + setattr(cls, "double skip", + PermissibleValue(text="double skip") ) + setattr(cls, "hawk and trowel", + PermissibleValue(text="hawk and trowel") ) + setattr(cls, "orange peel", + PermissibleValue(text="orange peel") ) + setattr(cls, "rosebud stomp", + PermissibleValue(text="rosebud stomp") ) + setattr(cls, "Santa-Fe texture", + PermissibleValue(text="Santa-Fe texture") ) + setattr(cls, "skip trowel", + PermissibleValue(text="skip trowel") ) + setattr(cls, "stomp knockdown", + PermissibleValue(text="stomp knockdown") ) + +class WallLocEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + + _defn = EnumDefinition( + name="WallLocEnum", + ) + +class FloorWaterMoldEnum(EnumDefinitionImpl): + + condensation = PermissibleValue(text="condensation") + + _defn = EnumDefinition( + name="FloorWaterMoldEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "mold odor", + PermissibleValue(text="mold odor") ) + setattr(cls, "wet floor", + PermissibleValue(text="wet floor") ) + setattr(cls, "water stains", + PermissibleValue(text="water stains") ) + setattr(cls, "wall discoloration", + PermissibleValue(text="wall discoloration") ) + setattr(cls, "floor discoloration", + PermissibleValue(text="floor discoloration") ) + setattr(cls, "ceiling discoloration", + PermissibleValue(text="ceiling discoloration") ) + setattr(cls, "peeling paint or wallpaper", + PermissibleValue(text="peeling paint or wallpaper") ) + setattr(cls, "bulging walls", + PermissibleValue(text="bulging walls") ) + +class DoorTypeEnum(EnumDefinitionImpl): + + composite = PermissibleValue(text="composite") + metal = PermissibleValue(text="metal") + wooden = PermissibleValue(text="wooden") + + _defn = EnumDefinition( + name="DoorTypeEnum", + ) + +class WindowCondEnum(EnumDefinitionImpl): + + damaged = PermissibleValue(text="damaged") + new = PermissibleValue(text="new") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="WindowCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + +class WaterFeatTypeEnum(EnumDefinitionImpl): + + fountain = PermissibleValue(text="fountain") + pool = PermissibleValue(text="pool") + stream = PermissibleValue(text="stream") + waterfall = PermissibleValue(text="waterfall") + + _defn = EnumDefinition( + name="WaterFeatTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "standing feature", + PermissibleValue(text="standing feature") ) + +class FloorCondEnum(EnumDefinitionImpl): + + new = PermissibleValue(text="new") + damaged = PermissibleValue(text="damaged") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="FloorCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + +class IndoorSurfEnum(EnumDefinitionImpl): + + cabinet = PermissibleValue(text="cabinet") + ceiling = PermissibleValue(text="ceiling") + door = PermissibleValue(text="door") + shelving = PermissibleValue(text="shelving") + window = PermissibleValue(text="window") + wall = PermissibleValue(text="wall") + + _defn = EnumDefinition( + name="IndoorSurfEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "counter top", + PermissibleValue(text="counter top") ) + setattr(cls, "vent cover", + PermissibleValue(text="vent cover") ) + +class ExtWallOrientEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + northeast = PermissibleValue(text="northeast") + southeast = PermissibleValue(text="southeast") + southwest = PermissibleValue(text="southwest") + northwest = PermissibleValue(text="northwest") + + _defn = EnumDefinition( + name="ExtWallOrientEnum", + ) + +class BuildOccupTypeEnum(EnumDefinitionImpl): + + office = PermissibleValue(text="office") + market = PermissibleValue(text="market") + restaurant = PermissibleValue(text="restaurant") + residence = PermissibleValue(text="residence") + school = PermissibleValue(text="school") + residential = PermissibleValue(text="residential") + commercial = PermissibleValue(text="commercial") + airport = PermissibleValue(text="airport") + + _defn = EnumDefinition( + name="BuildOccupTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "low rise", + PermissibleValue(text="low rise") ) + setattr(cls, "high rise", + PermissibleValue(text="high rise") ) + setattr(cls, "wood framed", + PermissibleValue(text="wood framed") ) + setattr(cls, "health care", + PermissibleValue(text="health care") ) + setattr(cls, "sports complex", + PermissibleValue(text="sports complex") ) + +class DoorMatEnum(EnumDefinitionImpl): + + aluminum = PermissibleValue(text="aluminum") + fiberboard = PermissibleValue(text="fiberboard") + fiberglass = PermissibleValue(text="fiberglass") + metal = PermissibleValue(text="metal") + vinyl = PermissibleValue(text="vinyl") + wood = PermissibleValue(text="wood") + + _defn = EnumDefinition( + name="DoorMatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "cellular PVC", + PermissibleValue(text="cellular PVC") ) + setattr(cls, "engineered plastic", + PermissibleValue(text="engineered plastic") ) + setattr(cls, "thermoplastic alloy", + PermissibleValue(text="thermoplastic alloy") ) + setattr(cls, "wood/plastic composite", + PermissibleValue(text="wood/plastic composite") ) + +class DoorLocEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + + _defn = EnumDefinition( + name="DoorLocEnum", + ) + +class MechStrucEnum(EnumDefinitionImpl): + + subway = PermissibleValue(text="subway") + coach = PermissibleValue(text="coach") + carriage = PermissibleValue(text="carriage") + elevator = PermissibleValue(text="elevator") + escalator = PermissibleValue(text="escalator") + boat = PermissibleValue(text="boat") + train = PermissibleValue(text="train") + car = PermissibleValue(text="car") + bus = PermissibleValue(text="bus") + + _defn = EnumDefinition( + name="MechStrucEnum", + ) + +class SurfAirContEnum(EnumDefinitionImpl): + + dust = PermissibleValue(text="dust") + radon = PermissibleValue(text="radon") + nutrients = PermissibleValue(text="nutrients") + biocides = PermissibleValue(text="biocides") + + _defn = EnumDefinition( + name="SurfAirContEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "organic matter", + PermissibleValue(text="organic matter") ) + setattr(cls, "particulate matter", + PermissibleValue(text="particulate matter") ) + setattr(cls, "volatile organic compounds", + PermissibleValue(text="volatile organic compounds") ) + setattr(cls, "biological contaminants", + PermissibleValue(text="biological contaminants") ) + +class ShadingDeviceTypeEnum(EnumDefinitionImpl): + + tree = PermissibleValue(text="tree") + trellis = PermissibleValue(text="trellis") + + _defn = EnumDefinition( + name="ShadingDeviceTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "bahama shutters", + PermissibleValue(text="bahama shutters") ) + setattr(cls, "exterior roll blind", + PermissibleValue(text="exterior roll blind") ) + setattr(cls, "gambrel awning", + PermissibleValue(text="gambrel awning") ) + setattr(cls, "hood awning", + PermissibleValue(text="hood awning") ) + setattr(cls, "porchroller awning", + PermissibleValue(text="porchroller awning") ) + setattr(cls, "sarasota shutters", + PermissibleValue(text="sarasota shutters") ) + setattr(cls, "slatted aluminum", + PermissibleValue(text="slatted aluminum") ) + setattr(cls, "solid aluminum awning", + PermissibleValue(text="solid aluminum awning") ) + setattr(cls, "sun screen", + PermissibleValue(text="sun screen") ) + setattr(cls, "venetian awning", + PermissibleValue(text="venetian awning") ) + +class RoomLocEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="RoomLocEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "corner room", + PermissibleValue(text="corner room") ) + setattr(cls, "interior room", + PermissibleValue(text="interior room") ) + setattr(cls, "exterior wall", + PermissibleValue(text="exterior wall") ) + +class RoomCondtEnum(EnumDefinitionImpl): + + new = PermissibleValue(text="new") + damaged = PermissibleValue(text="damaged") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="RoomCondtEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + setattr(cls, "visible signs of mold/mildew", + PermissibleValue(text="visible signs of mold/mildew") ) + +class SurfMaterialEnum(EnumDefinitionImpl): + + adobe = PermissibleValue(text="adobe") + carpet = PermissibleValue(text="carpet") + concrete = PermissibleValue(text="concrete") + glass = PermissibleValue(text="glass") + metal = PermissibleValue(text="metal") + paint = PermissibleValue(text="paint") + plastic = PermissibleValue(text="plastic") + stone = PermissibleValue(text="stone") + stucco = PermissibleValue(text="stucco") + tile = PermissibleValue(text="tile") + vinyl = PermissibleValue(text="vinyl") + wood = PermissibleValue(text="wood") + + _defn = EnumDefinition( + name="SurfMaterialEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "cinder blocks", + PermissibleValue(text="cinder blocks") ) + setattr(cls, "hay bales", + PermissibleValue(text="hay bales") ) + setattr(cls, "stainless steel", + PermissibleValue(text="stainless steel") ) + +class CeilFinishMatEnum(EnumDefinitionImpl): + + drywall = PermissibleValue(text="drywall") + tiles = PermissibleValue(text="tiles") + PVC = PermissibleValue(text="PVC") + plasterboard = PermissibleValue(text="plasterboard") + metal = PermissibleValue(text="metal") + fiberglass = PermissibleValue(text="fiberglass") + stucco = PermissibleValue(text="stucco") + wood = PermissibleValue(text="wood") + + _defn = EnumDefinition( + name="CeilFinishMatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "mineral fibre", + PermissibleValue(text="mineral fibre") ) + setattr(cls, "mineral wool/calcium silicate", + PermissibleValue(text="mineral wool/calcium silicate") ) + +class DoorTypeWoodEnum(EnumDefinitionImpl): + + battened = PermissibleValue(text="battened") + flush = PermissibleValue(text="flush") + louvered = PermissibleValue(text="louvered") + + _defn = EnumDefinition( + name="DoorTypeWoodEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "bettened and ledged", + PermissibleValue(text="bettened and ledged") ) + setattr(cls, "ledged and braced", + PermissibleValue(text="ledged and braced") ) + setattr(cls, "ledged and framed", + PermissibleValue(text="ledged and framed") ) + setattr(cls, "ledged, braced and frame", + PermissibleValue(text="ledged, braced and frame") ) + setattr(cls, "framed and paneled", + PermissibleValue(text="framed and paneled") ) + setattr(cls, "glashed or sash", + PermissibleValue(text="glashed or sash") ) + setattr(cls, "wire gauged", + PermissibleValue(text="wire gauged") ) + +class HeatDelivLocEnum(EnumDefinitionImpl): + + north = PermissibleValue(text="north") + south = PermissibleValue(text="south") + east = PermissibleValue(text="east") + west = PermissibleValue(text="west") + + _defn = EnumDefinition( + name="HeatDelivLocEnum", + ) + +class TrainStatLocEnum(EnumDefinitionImpl): + + riverside = PermissibleValue(text="riverside") + + _defn = EnumDefinition( + name="TrainStatLocEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "south station above ground", + PermissibleValue(text="south station above ground") ) + setattr(cls, "south station underground", + PermissibleValue(text="south station underground") ) + setattr(cls, "south station amtrak", + PermissibleValue(text="south station amtrak") ) + setattr(cls, "forest hills", + PermissibleValue(text="forest hills") ) + +class FloorFinishMatEnum(EnumDefinitionImpl): + + tile = PermissibleValue(text="tile") + carpet = PermissibleValue(text="carpet") + rug = PermissibleValue(text="rug") + lineoleum = PermissibleValue(text="lineoleum") + stone = PermissibleValue(text="stone") + bamboo = PermissibleValue(text="bamboo") + cork = PermissibleValue(text="cork") + terrazo = PermissibleValue(text="terrazo") + concrete = PermissibleValue(text="concrete") + none = PermissibleValue(text="none") + sealed = PermissibleValue(text="sealed") + paint = PermissibleValue(text="paint") + + _defn = EnumDefinition( + name="FloorFinishMatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "wood strip or parquet", + PermissibleValue(text="wood strip or parquet") ) + setattr(cls, "laminate wood", + PermissibleValue(text="laminate wood") ) + setattr(cls, "vinyl composition tile", + PermissibleValue(text="vinyl composition tile") ) + setattr(cls, "sheet vinyl", + PermissibleValue(text="sheet vinyl") ) + setattr(cls, "clear finish", + PermissibleValue(text="clear finish") ) + setattr(cls, "none or unfinished", + PermissibleValue(text="none or unfinished") ) + +class WindowTypeEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="WindowTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "single-hung sash window", + PermissibleValue(text="single-hung sash window") ) + setattr(cls, "horizontal sash window", + PermissibleValue(text="horizontal sash window") ) + setattr(cls, "fixed window", + PermissibleValue(text="fixed window") ) + +class DrawingsEnum(EnumDefinitionImpl): + + operation = PermissibleValue(text="operation") + construction = PermissibleValue(text="construction") + bid = PermissibleValue(text="bid") + design = PermissibleValue(text="design") + diagram = PermissibleValue(text="diagram") + sketch = PermissibleValue(text="sketch") + + _defn = EnumDefinition( + name="DrawingsEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "as built", + PermissibleValue(text="as built") ) + setattr(cls, "building navigation map", + PermissibleValue(text="building navigation map") ) + +class WallConstTypeEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="WallConstTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "frame construction", + PermissibleValue(text="frame construction") ) + setattr(cls, "joisted masonry", + PermissibleValue(text="joisted masonry") ) + setattr(cls, "light noncombustible", + PermissibleValue(text="light noncombustible") ) + setattr(cls, "masonry noncombustible", + PermissibleValue(text="masonry noncombustible") ) + setattr(cls, "modified fire resistive", + PermissibleValue(text="modified fire resistive") ) + setattr(cls, "fire resistive", + PermissibleValue(text="fire resistive") ) + +class WallFinishMatEnum(EnumDefinitionImpl): + + plaster = PermissibleValue(text="plaster") + tile = PermissibleValue(text="tile") + terrazzo = PermissibleValue(text="terrazzo") + wood = PermissibleValue(text="wood") + metal = PermissibleValue(text="metal") + masonry = PermissibleValue(text="masonry") + + _defn = EnumDefinition( + name="WallFinishMatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "gypsum plaster", + PermissibleValue(text="gypsum plaster") ) + setattr(cls, "veneer plaster", + PermissibleValue(text="veneer plaster") ) + setattr(cls, "gypsum board", + PermissibleValue(text="gypsum board") ) + setattr(cls, "stone facing", + PermissibleValue(text="stone facing") ) + setattr(cls, "acoustical treatment", + PermissibleValue(text="acoustical treatment") ) + +class HeatCoolTypeEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="HeatCoolTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "radiant system", + PermissibleValue(text="radiant system") ) + setattr(cls, "heat pump", + PermissibleValue(text="heat pump") ) + setattr(cls, "forced air system", + PermissibleValue(text="forced air system") ) + setattr(cls, "steam forced heat", + PermissibleValue(text="steam forced heat") ) + setattr(cls, "wood stove", + PermissibleValue(text="wood stove") ) + +class WindowVertPosEnum(EnumDefinitionImpl): + + bottom = PermissibleValue(text="bottom") + middle = PermissibleValue(text="middle") + top = PermissibleValue(text="top") + low = PermissibleValue(text="low") + high = PermissibleValue(text="high") + + _defn = EnumDefinition( + name="WindowVertPosEnum", + ) + +class CeilCondEnum(EnumDefinitionImpl): + + new = PermissibleValue(text="new") + damaged = PermissibleValue(text="damaged") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="CeilCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + +class DoorCondEnum(EnumDefinitionImpl): + + damaged = PermissibleValue(text="damaged") + new = PermissibleValue(text="new") + rupture = PermissibleValue(text="rupture") + + _defn = EnumDefinition( + name="DoorCondEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "needs repair", + PermissibleValue(text="needs repair") ) + setattr(cls, "visible wear", + PermissibleValue(text="visible wear") ) + +class RelSampLocEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="RelSampLocEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "edge of car", + PermissibleValue(text="edge of car") ) + setattr(cls, "center of car", + PermissibleValue(text="center of car") ) + setattr(cls, "under a seat", + PermissibleValue(text="under a seat") ) + +class RoomConnectedEnum(EnumDefinitionImpl): + + attic = PermissibleValue(text="attic") + bathroom = PermissibleValue(text="bathroom") + closet = PermissibleValue(text="closet") + elevator = PermissibleValue(text="elevator") + hallway = PermissibleValue(text="hallway") + kitchen = PermissibleValue(text="kitchen") + office = PermissibleValue(text="office") + stairwell = PermissibleValue(text="stairwell") + + _defn = EnumDefinition( + name="RoomConnectedEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "conference room", + PermissibleValue(text="conference room") ) + setattr(cls, "examining room", + PermissibleValue(text="examining room") ) + setattr(cls, "mail room", + PermissibleValue(text="mail room") ) + +class TrainStopLocEnum(EnumDefinitionImpl): + + end = PermissibleValue(text="end") + mid = PermissibleValue(text="mid") + downtown = PermissibleValue(text="downtown") + + _defn = EnumDefinition( + name="TrainStopLocEnum", + ) + +class QuadPosEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="QuadPosEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "North side", + PermissibleValue(text="North side") ) + setattr(cls, "West side", + PermissibleValue(text="West side") ) + setattr(cls, "South side", + PermissibleValue(text="South side") ) + setattr(cls, "East side", + PermissibleValue(text="East side") ) + +class CeilTypeEnum(EnumDefinitionImpl): + + cathedral = PermissibleValue(text="cathedral") + dropped = PermissibleValue(text="dropped") + concave = PermissibleValue(text="concave") + coffered = PermissibleValue(text="coffered") + cove = PermissibleValue(text="cove") + stretched = PermissibleValue(text="stretched") + + _defn = EnumDefinition( + name="CeilTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "barrel-shaped", + PermissibleValue(text="barrel-shaped") ) + +class BuildDocsEnum(EnumDefinitionImpl): + + schedule = PermissibleValue(text="schedule") + sections = PermissibleValue(text="sections") + submittals = PermissibleValue(text="submittals") + windows = PermissibleValue(text="windows") + + _defn = EnumDefinition( + name="BuildDocsEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "building information model", + PermissibleValue(text="building information model") ) + setattr(cls, "commissioning report", + PermissibleValue(text="commissioning report") ) + setattr(cls, "complaint logs", + PermissibleValue(text="complaint logs") ) + setattr(cls, "contract administration", + PermissibleValue(text="contract administration") ) + setattr(cls, "cost estimate", + PermissibleValue(text="cost estimate") ) + setattr(cls, "janitorial schedules or logs", + PermissibleValue(text="janitorial schedules or logs") ) + setattr(cls, "maintenance plans", + PermissibleValue(text="maintenance plans") ) + setattr(cls, "shop drawings", + PermissibleValue(text="shop drawings") ) + setattr(cls, "ventilation system", + PermissibleValue(text="ventilation system") ) + +class RoomTypeEnum(EnumDefinitionImpl): + + attic = PermissibleValue(text="attic") + bathroom = PermissibleValue(text="bathroom") + closet = PermissibleValue(text="closet") + elevator = PermissibleValue(text="elevator") + hallway = PermissibleValue(text="hallway") + kitchen = PermissibleValue(text="kitchen") + stairwell = PermissibleValue(text="stairwell") + lobby = PermissibleValue(text="lobby") + vestibule = PermissibleValue(text="vestibule") + laboratory_wet = PermissibleValue(text="laboratory_wet") + laboratory_dry = PermissibleValue(text="laboratory_dry") + gymnasium = PermissibleValue(text="gymnasium") + natatorium = PermissibleValue(text="natatorium") + auditorium = PermissibleValue(text="auditorium") + lockers = PermissibleValue(text="lockers") + cafe = PermissibleValue(text="cafe") + warehouse = PermissibleValue(text="warehouse") + + _defn = EnumDefinition( + name="RoomTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "conference room", + PermissibleValue(text="conference room") ) + setattr(cls, "examining room", + PermissibleValue(text="examining room") ) + setattr(cls, "mail room", + PermissibleValue(text="mail room") ) + setattr(cls, "private office", + PermissibleValue(text="private office") ) + setattr(cls, "open office", + PermissibleValue(text="open office") ) + setattr(cls, ",restroom", + PermissibleValue(text=",restroom") ) + setattr(cls, "mechanical or electrical room", + PermissibleValue(text="mechanical or electrical room") ) + setattr(cls, "data center", + PermissibleValue(text="data center") ) + +class SeasonUseEnum(EnumDefinitionImpl): + + Spring = PermissibleValue(text="Spring") + Summer = PermissibleValue(text="Summer") + Fall = PermissibleValue(text="Fall") + Winter = PermissibleValue(text="Winter") + + _defn = EnumDefinition( + name="SeasonUseEnum", + ) + +class DoorTypeMetalEnum(EnumDefinitionImpl): + + collapsible = PermissibleValue(text="collapsible") + hollow = PermissibleValue(text="hollow") + + _defn = EnumDefinition( + name="DoorTypeMetalEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "corrugated steel", + PermissibleValue(text="corrugated steel") ) + setattr(cls, "rolling shutters", + PermissibleValue(text="rolling shutters") ) + setattr(cls, "steel plate", + PermissibleValue(text="steel plate") ) + +class RoomSampPosEnum(EnumDefinitionImpl): + + center = PermissibleValue(text="center") + + _defn = EnumDefinition( + name="RoomSampPosEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "north corner", + PermissibleValue(text="north corner") ) + setattr(cls, "south corner", + PermissibleValue(text="south corner") ) + setattr(cls, "west corner", + PermissibleValue(text="west corner") ) + setattr(cls, "east corner", + PermissibleValue(text="east corner") ) + setattr(cls, "northeast corner", + PermissibleValue(text="northeast corner") ) + setattr(cls, "northwest corner", + PermissibleValue(text="northwest corner") ) + setattr(cls, "southeast corner", + PermissibleValue(text="southeast corner") ) + setattr(cls, "southwest corner", + PermissibleValue(text="southwest corner") ) + +class SampWeatherEnum(EnumDefinitionImpl): + + cloudy = PermissibleValue(text="cloudy") + foggy = PermissibleValue(text="foggy") + hail = PermissibleValue(text="hail") + rain = PermissibleValue(text="rain") + snow = PermissibleValue(text="snow") + sleet = PermissibleValue(text="sleet") + sunny = PermissibleValue(text="sunny") + windy = PermissibleValue(text="windy") + + _defn = EnumDefinition( + name="SampWeatherEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "clear sky", + PermissibleValue(text="clear sky") ) + +class GenderRestroomEnum(EnumDefinitionImpl): + + female = PermissibleValue(text="female") + male = PermissibleValue(text="male") + unisex = PermissibleValue(text="unisex") + + _defn = EnumDefinition( + name="GenderRestroomEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "all gender", + PermissibleValue(text="all gender") ) + setattr(cls, "gender neurtral", + PermissibleValue(text="gender neurtral") ) + setattr(cls, "male and female", + PermissibleValue(text="male and female") ) + +class HcProducedEnum(EnumDefinitionImpl): + + Oil = PermissibleValue(text="Oil") + Gas = PermissibleValue(text="Gas") + Bitumen = PermissibleValue(text="Bitumen") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="HcProducedEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Gas-Condensate", + PermissibleValue(text="Gas-Condensate") ) + setattr(cls, "Coalbed Methane", + PermissibleValue(text="Coalbed Methane") ) + +class HcrEnum(EnumDefinitionImpl): + + Coalbed = PermissibleValue(text="Coalbed") + Shale = PermissibleValue(text="Shale") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="HcrEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Oil Reservoir", + PermissibleValue(text="Oil Reservoir") ) + setattr(cls, "Gas Reservoir", + PermissibleValue(text="Gas Reservoir") ) + setattr(cls, "Oil Sand", + PermissibleValue(text="Oil Sand") ) + setattr(cls, "Tight Oil Reservoir", + PermissibleValue(text="Tight Oil Reservoir") ) + setattr(cls, "Tight Gas Reservoir", + PermissibleValue(text="Tight Gas Reservoir") ) + +class LithologyEnum(EnumDefinitionImpl): + + Basement = PermissibleValue(text="Basement") + Chalk = PermissibleValue(text="Chalk") + Chert = PermissibleValue(text="Chert") + Coal = PermissibleValue(text="Coal") + Conglomerate = PermissibleValue(text="Conglomerate") + Diatomite = PermissibleValue(text="Diatomite") + Dolomite = PermissibleValue(text="Dolomite") + Limestone = PermissibleValue(text="Limestone") + Sandstone = PermissibleValue(text="Sandstone") + Shale = PermissibleValue(text="Shale") + Siltstone = PermissibleValue(text="Siltstone") + Volcanic = PermissibleValue(text="Volcanic") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="LithologyEnum", + ) + +class SampCollectPointEnum(EnumDefinitionImpl): + + well = PermissibleValue(text="well") + wellhead = PermissibleValue(text="wellhead") + separator = PermissibleValue(text="separator") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SampCollectPointEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "test well", + PermissibleValue(text="test well") ) + setattr(cls, "drilling rig", + PermissibleValue(text="drilling rig") ) + setattr(cls, "storage tank", + PermissibleValue(text="storage tank") ) + +class OxyStatSampEnum(EnumDefinitionImpl): + + aerobic = PermissibleValue(text="aerobic") + anaerobic = PermissibleValue(text="anaerobic") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="OxyStatSampEnum", + ) + +class DeposEnvEnum(EnumDefinitionImpl): + + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="DeposEnvEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Continental - Alluvial", + PermissibleValue(text="Continental - Alluvial") ) + setattr(cls, "Continental - Aeolian", + PermissibleValue(text="Continental - Aeolian") ) + setattr(cls, "Continental - Fluvial", + PermissibleValue(text="Continental - Fluvial") ) + setattr(cls, "Continental - Lacustrine", + PermissibleValue(text="Continental - Lacustrine") ) + setattr(cls, "Transitional - Deltaic", + PermissibleValue(text="Transitional - Deltaic") ) + setattr(cls, "Transitional - Tidal", + PermissibleValue(text="Transitional - Tidal") ) + setattr(cls, "Transitional - Lagoonal", + PermissibleValue(text="Transitional - Lagoonal") ) + setattr(cls, "Transitional - Beach", + PermissibleValue(text="Transitional - Beach") ) + setattr(cls, "Transitional - Lake", + PermissibleValue(text="Transitional - Lake") ) + setattr(cls, "Marine - Shallow", + PermissibleValue(text="Marine - Shallow") ) + setattr(cls, "Marine - Deep", + PermissibleValue(text="Marine - Deep") ) + setattr(cls, "Marine - Reef", + PermissibleValue(text="Marine - Reef") ) + setattr(cls, "Other - Evaporite", + PermissibleValue(text="Other - Evaporite") ) + setattr(cls, "Other - Glacial", + PermissibleValue(text="Other - Glacial") ) + setattr(cls, "Other - Volcanic", + PermissibleValue(text="Other - Volcanic") ) + +class HcrGeolAgeEnum(EnumDefinitionImpl): + + Archean = PermissibleValue(text="Archean") + Cambrian = PermissibleValue(text="Cambrian") + Carboniferous = PermissibleValue(text="Carboniferous") + Cenozoic = PermissibleValue(text="Cenozoic") + Cretaceous = PermissibleValue(text="Cretaceous") + Devonian = PermissibleValue(text="Devonian") + Jurassic = PermissibleValue(text="Jurassic") + Mesozoic = PermissibleValue(text="Mesozoic") + Neogene = PermissibleValue(text="Neogene") + Ordovician = PermissibleValue(text="Ordovician") + Paleogene = PermissibleValue(text="Paleogene") + Paleozoic = PermissibleValue(text="Paleozoic") + Permian = PermissibleValue(text="Permian") + Precambrian = PermissibleValue(text="Precambrian") + Proterozoic = PermissibleValue(text="Proterozoic") + Silurian = PermissibleValue(text="Silurian") + Triassic = PermissibleValue(text="Triassic") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="HcrGeolAgeEnum", + ) + +class SampSubtypeEnum(EnumDefinitionImpl): + + biofilm = PermissibleValue(text="biofilm") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SampSubtypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "oil phase", + PermissibleValue(text="oil phase") ) + setattr(cls, "water phase", + PermissibleValue(text="water phase") ) + setattr(cls, "not applicable", + PermissibleValue(text="not applicable") ) + +class SrLithologyEnum(EnumDefinitionImpl): + + Clastic = PermissibleValue(text="Clastic") + Carbonate = PermissibleValue(text="Carbonate") + Coal = PermissibleValue(text="Coal") + Biosilicieous = PermissibleValue(text="Biosilicieous") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SrLithologyEnum", + ) + +class SrKerogTypeEnum(EnumDefinitionImpl): + + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SrKerogTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "Type I", + PermissibleValue(text="Type I") ) + setattr(cls, "Type II", + PermissibleValue(text="Type II") ) + setattr(cls, "Type III", + PermissibleValue(text="Type III") ) + setattr(cls, "Type IV", + PermissibleValue(text="Type IV") ) + +class SrDepEnvEnum(EnumDefinitionImpl): + + Lacustine = PermissibleValue(text="Lacustine") + Fluvioldeltaic = PermissibleValue(text="Fluvioldeltaic") + Fluviomarine = PermissibleValue(text="Fluviomarine") + Marine = PermissibleValue(text="Marine") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SrDepEnvEnum", + ) + +class SrGeolAgeEnum(EnumDefinitionImpl): + + Archean = PermissibleValue(text="Archean") + Cambrian = PermissibleValue(text="Cambrian") + Carboniferous = PermissibleValue(text="Carboniferous") + Cenozoic = PermissibleValue(text="Cenozoic") + Cretaceous = PermissibleValue(text="Cretaceous") + Devonian = PermissibleValue(text="Devonian") + Jurassic = PermissibleValue(text="Jurassic") + Mesozoic = PermissibleValue(text="Mesozoic") + Neogene = PermissibleValue(text="Neogene") + Ordovician = PermissibleValue(text="Ordovician") + Paleogene = PermissibleValue(text="Paleogene") + Paleozoic = PermissibleValue(text="Paleozoic") + Permian = PermissibleValue(text="Permian") + Precambrian = PermissibleValue(text="Precambrian") + Proterozoic = PermissibleValue(text="Proterozoic") + Silurian = PermissibleValue(text="Silurian") + Triassic = PermissibleValue(text="Triassic") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SrGeolAgeEnum", + ) + +class BioticRelationshipEnum(EnumDefinitionImpl): + + parasite = PermissibleValue(text="parasite") + commensal = PermissibleValue(text="commensal") + symbiont = PermissibleValue(text="symbiont") + + _defn = EnumDefinition( + name="BioticRelationshipEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "free living", + PermissibleValue(text="free living") ) + +class FaoClassEnum(EnumDefinitionImpl): + + Acrisols = PermissibleValue(text="Acrisols") + Andosols = PermissibleValue(text="Andosols") + Arenosols = PermissibleValue(text="Arenosols") + Cambisols = PermissibleValue(text="Cambisols") + Chernozems = PermissibleValue(text="Chernozems") + Ferralsols = PermissibleValue(text="Ferralsols") + Fluvisols = PermissibleValue(text="Fluvisols") + Gleysols = PermissibleValue(text="Gleysols") + Greyzems = PermissibleValue(text="Greyzems") + Gypsisols = PermissibleValue(text="Gypsisols") + Histosols = PermissibleValue(text="Histosols") + Kastanozems = PermissibleValue(text="Kastanozems") + Lithosols = PermissibleValue(text="Lithosols") + Luvisols = PermissibleValue(text="Luvisols") + Nitosols = PermissibleValue(text="Nitosols") + Phaeozems = PermissibleValue(text="Phaeozems") + Planosols = PermissibleValue(text="Planosols") + Podzols = PermissibleValue(text="Podzols") + Podzoluvisols = PermissibleValue(text="Podzoluvisols") + Rankers = PermissibleValue(text="Rankers") + Regosols = PermissibleValue(text="Regosols") + Rendzinas = PermissibleValue(text="Rendzinas") + Solonchaks = PermissibleValue(text="Solonchaks") + Solonetz = PermissibleValue(text="Solonetz") + Vertisols = PermissibleValue(text="Vertisols") + Yermosols = PermissibleValue(text="Yermosols") + + _defn = EnumDefinition( + name="FaoClassEnum", + ) + +class CurLandUseEnum(EnumDefinitionImpl): + + badlands = PermissibleValue(text="badlands") + cities = PermissibleValue(text="cities") + conifers = PermissibleValue(text="conifers") + farmstead = PermissibleValue(text="farmstead") + gravel = PermissibleValue(text="gravel") + hardwoods = PermissibleValue(text="hardwoods") + hayland = PermissibleValue(text="hayland") + marshlands = PermissibleValue(text="marshlands") + meadows = PermissibleValue(text="meadows") + mudflats = PermissibleValue(text="mudflats") + pastureland = PermissibleValue(text="pastureland") + rainforest = PermissibleValue(text="rainforest") + rangeland = PermissibleValue(text="rangeland") + rock = PermissibleValue(text="rock") + sand = PermissibleValue(text="sand") + swamp = PermissibleValue(text="swamp") + tropical = PermissibleValue(text="tropical") + tundra = PermissibleValue(text="tundra") + + _defn = EnumDefinition( + name="CurLandUseEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "crop trees", + PermissibleValue(text="crop trees") ) + setattr(cls, "horticultural plants", + PermissibleValue(text="horticultural plants") ) + setattr(cls, "industrial areas", + PermissibleValue(text="industrial areas") ) + setattr(cls, "intermixed hardwood and conifers", + PermissibleValue(text="intermixed hardwood and conifers") ) + setattr(cls, "mines/quarries", + PermissibleValue(text="mines/quarries") ) + setattr(cls, "oil waste areas", + PermissibleValue(text="oil waste areas") ) + setattr(cls, "permanent snow or ice", + PermissibleValue(text="permanent snow or ice") ) + setattr(cls, "roads/railroads", + PermissibleValue(text="roads/railroads") ) + setattr(cls, "row crops", + PermissibleValue(text="row crops") ) + setattr(cls, "saline seeps", + PermissibleValue(text="saline seeps") ) + setattr(cls, "salt flats", + PermissibleValue(text="salt flats") ) + setattr(cls, "shrub crops", + PermissibleValue(text="shrub crops") ) + setattr(cls, "shrub land", + PermissibleValue(text="shrub land") ) + setattr(cls, "small grains", + PermissibleValue(text="small grains") ) + setattr(cls, "successional shrub land", + PermissibleValue(text="successional shrub land") ) + setattr(cls, "vegetable crops", + PermissibleValue(text="vegetable crops") ) + setattr(cls, "vine crops", + PermissibleValue(text="vine crops") ) + +class SoilHorizonEnum(EnumDefinitionImpl): + + Permafrost = PermissibleValue(text="Permafrost") + + _defn = EnumDefinition( + name="SoilHorizonEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "O horizon", + PermissibleValue(text="O horizon") ) + setattr(cls, "A horizon", + PermissibleValue(text="A horizon") ) + setattr(cls, "E horizon", + PermissibleValue(text="E horizon") ) + setattr(cls, "B horizon", + PermissibleValue(text="B horizon") ) + setattr(cls, "C horizon", + PermissibleValue(text="C horizon") ) + setattr(cls, "R layer", + PermissibleValue(text="R layer") ) + setattr(cls, "M horizon", + PermissibleValue(text="M horizon") ) + +class ProfilePositionEnum(EnumDefinitionImpl): + + summit = PermissibleValue(text="summit") + shoulder = PermissibleValue(text="shoulder") + backslope = PermissibleValue(text="backslope") + footslope = PermissibleValue(text="footslope") + toeslope = PermissibleValue(text="toeslope") + + _defn = EnumDefinition( + name="ProfilePositionEnum", + ) + +class TillageEnum(EnumDefinitionImpl): + + drill = PermissibleValue(text="drill") + chisel = PermissibleValue(text="chisel") + tined = PermissibleValue(text="tined") + mouldboard = PermissibleValue(text="mouldboard") + + _defn = EnumDefinition( + name="TillageEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "cutting disc", + PermissibleValue(text="cutting disc") ) + setattr(cls, "ridge till", + PermissibleValue(text="ridge till") ) + setattr(cls, "strip tillage", + PermissibleValue(text="strip tillage") ) + setattr(cls, "zonal tillage", + PermissibleValue(text="zonal tillage") ) + setattr(cls, "disc plough", + PermissibleValue(text="disc plough") ) + +class DrainageClassEnum(EnumDefinitionImpl): + + poorly = PermissibleValue(text="poorly") + well = PermissibleValue(text="well") + + _defn = EnumDefinition( + name="DrainageClassEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "very poorly", + PermissibleValue(text="very poorly") ) + setattr(cls, "somewhat poorly", + PermissibleValue(text="somewhat poorly") ) + setattr(cls, "moderately well", + PermissibleValue(text="moderately well") ) + setattr(cls, "excessively drained", + PermissibleValue(text="excessively drained") ) + +class SampCaptStatusEnum(EnumDefinitionImpl): + + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SampCaptStatusEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "active surveillance in response to an outbreak", + PermissibleValue(text="active surveillance in response to an outbreak") ) + setattr(cls, "active surveillance not initiated by an outbreak", + PermissibleValue(text="active surveillance not initiated by an outbreak") ) + setattr(cls, "farm sample", + PermissibleValue(text="farm sample") ) + setattr(cls, "market sample", + PermissibleValue(text="market sample") ) + +class SampDisStageEnum(EnumDefinitionImpl): + + dissemination = PermissibleValue(text="dissemination") + infection = PermissibleValue(text="infection") + inoculation = PermissibleValue(text="inoculation") + penetration = PermissibleValue(text="penetration") + other = PermissibleValue(text="other") + + _defn = EnumDefinition( + name="SampDisStageEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "growth and reproduction", + PermissibleValue(text="growth and reproduction") ) + +class BiolStatEnum(EnumDefinitionImpl): + + wild = PermissibleValue(text="wild") + natural = PermissibleValue(text="natural") + hybrid = PermissibleValue(text="hybrid") + mutant = PermissibleValue(text="mutant") + + _defn = EnumDefinition( + name="BiolStatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "semi-natural", + PermissibleValue(text="semi-natural") ) + setattr(cls, "inbred line", + PermissibleValue(text="inbred line") ) + setattr(cls, "breeder's line", + PermissibleValue(text="breeder's line") ) + setattr(cls, "clonal selection", + PermissibleValue(text="clonal selection") ) + +class GrowthHabitEnum(EnumDefinitionImpl): + + erect = PermissibleValue(text="erect") + spreading = PermissibleValue(text="spreading") + prostrate = PermissibleValue(text="prostrate") + + _defn = EnumDefinition( + name="GrowthHabitEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "semi-erect", + PermissibleValue(text="semi-erect") ) + +class PlantSexEnum(EnumDefinitionImpl): + + Androdioecious = PermissibleValue(text="Androdioecious") + Androecious = PermissibleValue(text="Androecious") + Androgynous = PermissibleValue(text="Androgynous") + Androgynomonoecious = PermissibleValue(text="Androgynomonoecious") + Andromonoecious = PermissibleValue(text="Andromonoecious") + Bisexual = PermissibleValue(text="Bisexual") + Dichogamous = PermissibleValue(text="Dichogamous") + Diclinous = PermissibleValue(text="Diclinous") + Dioecious = PermissibleValue(text="Dioecious") + Gynodioecious = PermissibleValue(text="Gynodioecious") + Gynoecious = PermissibleValue(text="Gynoecious") + Gynomonoecious = PermissibleValue(text="Gynomonoecious") + Hermaphroditic = PermissibleValue(text="Hermaphroditic") + Imperfect = PermissibleValue(text="Imperfect") + Monoclinous = PermissibleValue(text="Monoclinous") + Monoecious = PermissibleValue(text="Monoecious") + Perfect = PermissibleValue(text="Perfect") + Polygamodioecious = PermissibleValue(text="Polygamodioecious") + Polygamomonoecious = PermissibleValue(text="Polygamomonoecious") + Polygamous = PermissibleValue(text="Polygamous") + Protandrous = PermissibleValue(text="Protandrous") + Protogynous = PermissibleValue(text="Protogynous") + Subandroecious = PermissibleValue(text="Subandroecious") + Subdioecious = PermissibleValue(text="Subdioecious") + Subgynoecious = PermissibleValue(text="Subgynoecious") + Synoecious = PermissibleValue(text="Synoecious") + Trimonoecious = PermissibleValue(text="Trimonoecious") + Trioecious = PermissibleValue(text="Trioecious") + Unisexual = PermissibleValue(text="Unisexual") + + _defn = EnumDefinition( + name="PlantSexEnum", + ) + +class SedimentTypeEnum(EnumDefinitionImpl): + + biogenous = PermissibleValue(text="biogenous") + cosmogenous = PermissibleValue(text="cosmogenous") + hydrogenous = PermissibleValue(text="hydrogenous") + lithogenous = PermissibleValue(text="lithogenous") + + _defn = EnumDefinition( + name="SedimentTypeEnum", + ) + +class TidalStageEnum(EnumDefinitionImpl): + + _defn = EnumDefinition( + name="TidalStageEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "low tide", + PermissibleValue(text="low tide") ) + setattr(cls, "ebb tide", + PermissibleValue(text="ebb tide") ) + setattr(cls, "flood tide", + PermissibleValue(text="flood tide") ) + setattr(cls, "high tide", + PermissibleValue(text="high tide") ) + +class HostSexEnum(EnumDefinitionImpl): + + female = PermissibleValue(text="female") + hermaphrodite = PermissibleValue(text="hermaphrodite") + male = PermissibleValue(text="male") + neuter = PermissibleValue(text="neuter") + + _defn = EnumDefinition( + name="HostSexEnum", + ) + +class AnalysisTypeEnum(EnumDefinitionImpl): + + metabolomics = PermissibleValue(text="metabolomics") + metagenomics = PermissibleValue(text="metagenomics") + metaproteomics = PermissibleValue(text="metaproteomics") + metatranscriptomics = PermissibleValue(text="metatranscriptomics") + + _defn = EnumDefinition( + name="AnalysisTypeEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "natural organic matter", + PermissibleValue(text="natural organic matter") ) + +class DnaSampleFormatEnum(EnumDefinitionImpl): + + DNAStable = PermissibleValue(text="DNAStable") + Ethanol = PermissibleValue(text="Ethanol") + PBS = PermissibleValue(text="PBS") + Pellet = PermissibleValue(text="Pellet") + RNAStable = PermissibleValue(text="RNAStable") + TE = PermissibleValue(text="TE") + Water = PermissibleValue(text="Water") + + _defn = EnumDefinition( + name="DnaSampleFormatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "10 mM Tris-HCl", + PermissibleValue(text="10 mM Tris-HCl") ) + setattr(cls, "Low EDTA TE", + PermissibleValue(text="Low EDTA TE") ) + setattr(cls, "MDA reaction buffer", + PermissibleValue(text="MDA reaction buffer") ) + setattr(cls, "Gentegra-DNA", + PermissibleValue(text="Gentegra-DNA") ) + setattr(cls, "Gentegra-RNA", + PermissibleValue(text="Gentegra-RNA") ) + +class RnaSampleFormatEnum(EnumDefinitionImpl): + + DNAStable = PermissibleValue(text="DNAStable") + Ethanol = PermissibleValue(text="Ethanol") + PBS = PermissibleValue(text="PBS") + Pellet = PermissibleValue(text="Pellet") + RNAStable = PermissibleValue(text="RNAStable") + TE = PermissibleValue(text="TE") + Water = PermissibleValue(text="Water") + + _defn = EnumDefinition( + name="RnaSampleFormatEnum", + ) + + @classmethod + def _addvals(cls): + setattr(cls, "10 mM Tris-HCl", + PermissibleValue(text="10 mM Tris-HCl") ) + setattr(cls, "Low EDTA TE", + PermissibleValue(text="Low EDTA TE") ) + setattr(cls, "MDA reaction buffer", + PermissibleValue(text="MDA reaction buffer") ) + setattr(cls, "Gentegra-DNA", + PermissibleValue(text="Gentegra-DNA") ) + setattr(cls, "Gentegra-RNA", + PermissibleValue(text="Gentegra-RNA") ) + +class SampleTypeEnum(EnumDefinitionImpl): + + soil = PermissibleValue(text="soil") + water_extract_soil = PermissibleValue(text="water_extract_soil") + + _defn = EnumDefinition( + name="SampleTypeEnum", + ) + +# Slots +class slots: + pass + +slots.air_data = Slot(uri=NMDC_SUB_SCHEMA.air_data, name="air_data", curie=NMDC_SUB_SCHEMA.curie('air_data'), + model_uri=NMDC_SUB_SCHEMA.air_data, domain=None, range=Optional[Union[Union[dict, AirInterface], List[Union[dict, AirInterface]]]]) + +slots.biofilm_data = Slot(uri=NMDC_SUB_SCHEMA.biofilm_data, name="biofilm_data", curie=NMDC_SUB_SCHEMA.curie('biofilm_data'), + model_uri=NMDC_SUB_SCHEMA.biofilm_data, domain=None, range=Optional[Union[Union[dict, BiofilmInterface], List[Union[dict, BiofilmInterface]]]]) + +slots.built_env_data = Slot(uri=NMDC_SUB_SCHEMA.built_env_data, name="built_env_data", curie=NMDC_SUB_SCHEMA.curie('built_env_data'), + model_uri=NMDC_SUB_SCHEMA.built_env_data, domain=None, range=Optional[Union[Union[dict, BuiltEnvInterface], List[Union[dict, BuiltEnvInterface]]]]) + +slots.emsl_data = Slot(uri=NMDC_SUB_SCHEMA.emsl_data, name="emsl_data", curie=NMDC_SUB_SCHEMA.curie('emsl_data'), + model_uri=NMDC_SUB_SCHEMA.emsl_data, domain=None, range=Optional[Union[Union[dict, EmslInterface], List[Union[dict, EmslInterface]]]]) + +slots.hcr_cores_data = Slot(uri=NMDC_SUB_SCHEMA.hcr_cores_data, name="hcr_cores_data", curie=NMDC_SUB_SCHEMA.curie('hcr_cores_data'), + model_uri=NMDC_SUB_SCHEMA.hcr_cores_data, domain=None, range=Optional[Union[Union[dict, HcrCoresInterface], List[Union[dict, HcrCoresInterface]]]]) + +slots.hcr_fluids_swabs_data = Slot(uri=NMDC_SUB_SCHEMA.hcr_fluids_swabs_data, name="hcr_fluids_swabs_data", curie=NMDC_SUB_SCHEMA.curie('hcr_fluids_swabs_data'), + model_uri=NMDC_SUB_SCHEMA.hcr_fluids_swabs_data, domain=None, range=Optional[Union[Union[dict, HcrFluidsSwabsInterface], List[Union[dict, HcrFluidsSwabsInterface]]]]) + +slots.host_associated_data = Slot(uri=NMDC_SUB_SCHEMA.host_associated_data, name="host_associated_data", curie=NMDC_SUB_SCHEMA.curie('host_associated_data'), + model_uri=NMDC_SUB_SCHEMA.host_associated_data, domain=None, range=Optional[Union[Union[dict, HostAssociatedInterface], List[Union[dict, HostAssociatedInterface]]]]) + +slots.jgi_mg_data = Slot(uri=NMDC_SUB_SCHEMA.jgi_mg_data, name="jgi_mg_data", curie=NMDC_SUB_SCHEMA.curie('jgi_mg_data'), + model_uri=NMDC_SUB_SCHEMA.jgi_mg_data, domain=None, range=Optional[Union[Union[dict, JgiMgInterface], List[Union[dict, JgiMgInterface]]]]) + +slots.jgi_mt_data = Slot(uri=NMDC_SUB_SCHEMA.jgi_mt_data, name="jgi_mt_data", curie=NMDC_SUB_SCHEMA.curie('jgi_mt_data'), + model_uri=NMDC_SUB_SCHEMA.jgi_mt_data, domain=None, range=Optional[Union[Union[dict, JgiMtInterface], List[Union[dict, JgiMtInterface]]]]) + +slots.misc_envs_data = Slot(uri=NMDC_SUB_SCHEMA.misc_envs_data, name="misc_envs_data", curie=NMDC_SUB_SCHEMA.curie('misc_envs_data'), + model_uri=NMDC_SUB_SCHEMA.misc_envs_data, domain=None, range=Optional[Union[Union[dict, MiscEnvsInterface], List[Union[dict, MiscEnvsInterface]]]]) + +slots.plant_associated_data = Slot(uri=NMDC_SUB_SCHEMA.plant_associated_data, name="plant_associated_data", curie=NMDC_SUB_SCHEMA.curie('plant_associated_data'), + model_uri=NMDC_SUB_SCHEMA.plant_associated_data, domain=None, range=Optional[Union[Union[dict, PlantAssociatedInterface], List[Union[dict, PlantAssociatedInterface]]]]) + +slots.sediment_data = Slot(uri=NMDC_SUB_SCHEMA.sediment_data, name="sediment_data", curie=NMDC_SUB_SCHEMA.curie('sediment_data'), + model_uri=NMDC_SUB_SCHEMA.sediment_data, domain=None, range=Optional[Union[Union[dict, SedimentInterface], List[Union[dict, SedimentInterface]]]]) + +slots.soil_data = Slot(uri=NMDC_SUB_SCHEMA.soil_data, name="soil_data", curie=NMDC_SUB_SCHEMA.curie('soil_data'), + model_uri=NMDC_SUB_SCHEMA.soil_data, domain=None, range=Optional[Union[Union[dict, SoilInterface], List[Union[dict, SoilInterface]]]]) + +slots.wastewater_sludge_data = Slot(uri=NMDC_SUB_SCHEMA.wastewater_sludge_data, name="wastewater_sludge_data", curie=NMDC_SUB_SCHEMA.curie('wastewater_sludge_data'), + model_uri=NMDC_SUB_SCHEMA.wastewater_sludge_data, domain=None, range=Optional[Union[Union[dict, WastewaterSludgeInterface], List[Union[dict, WastewaterSludgeInterface]]]]) + +slots.water_data = Slot(uri=NMDC_SUB_SCHEMA.water_data, name="water_data", curie=NMDC_SUB_SCHEMA.curie('water_data'), + model_uri=NMDC_SUB_SCHEMA.water_data, domain=None, range=Optional[Union[Union[dict, WaterInterface], List[Union[dict, WaterInterface]]]]) + +slots.dh_section = Slot(uri=NMDC_SUB_SCHEMA.dh_section, name="dh_section", curie=NMDC_SUB_SCHEMA.curie('dh_section'), + model_uri=NMDC_SUB_SCHEMA.dh_section, domain=None, range=Optional[str]) + +slots.emsl_section = Slot(uri=NMDC_SUB_SCHEMA.emsl_section, name="emsl_section", curie=NMDC_SUB_SCHEMA.curie('emsl_section'), + model_uri=NMDC_SUB_SCHEMA.emsl_section, domain=None, range=Optional[str]) + +slots.jgi_metagenomics_section = Slot(uri=NMDC_SUB_SCHEMA.jgi_metagenomics_section, name="jgi_metagenomics_section", curie=NMDC_SUB_SCHEMA.curie('jgi_metagenomics_section'), + model_uri=NMDC_SUB_SCHEMA.jgi_metagenomics_section, domain=None, range=Optional[str]) + +slots.jgi_metatranscriptomics_section = Slot(uri=NMDC_SUB_SCHEMA.jgi_metatranscriptomics_section, name="jgi_metatranscriptomics_section", curie=NMDC_SUB_SCHEMA.curie('jgi_metatranscriptomics_section'), + model_uri=NMDC_SUB_SCHEMA.jgi_metatranscriptomics_section, domain=None, range=Optional[str]) + +slots.mixs_core_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_core_section, name="mixs_core_section", curie=NMDC_SUB_SCHEMA.curie('mixs_core_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_core_section, domain=None, range=Optional[str]) + +slots.mixs_inspired_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_inspired_section, name="mixs_inspired_section", curie=NMDC_SUB_SCHEMA.curie('mixs_inspired_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_inspired_section, domain=None, range=Optional[str]) + +slots.mixs_investigation_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_investigation_section, name="mixs_investigation_section", curie=NMDC_SUB_SCHEMA.curie('mixs_investigation_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_investigation_section, domain=None, range=Optional[str]) + +slots.mixs_modified_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_modified_section, name="mixs_modified_section", curie=NMDC_SUB_SCHEMA.curie('mixs_modified_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_modified_section, domain=None, range=Optional[str]) + +slots.mixs_nassf_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_nassf_section, name="mixs_nassf_section", curie=NMDC_SUB_SCHEMA.curie('mixs_nassf_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_nassf_section, domain=None, range=Optional[str]) + +slots.mixs_section = Slot(uri=NMDC_SUB_SCHEMA.mixs_section, name="mixs_section", curie=NMDC_SUB_SCHEMA.curie('mixs_section'), + model_uri=NMDC_SUB_SCHEMA.mixs_section, domain=None, range=Optional[str]) + +slots.sample_id_section = Slot(uri=NMDC_SUB_SCHEMA.sample_id_section, name="sample_id_section", curie=NMDC_SUB_SCHEMA.curie('sample_id_section'), + model_uri=NMDC_SUB_SCHEMA.sample_id_section, domain=None, range=Optional[str]) + +slots.abs_air_humidity = Slot(uri=MIXS['0000122'], name="abs_air_humidity", curie=MIXS.curie('0000122'), + model_uri=NMDC_SUB_SCHEMA.abs_air_humidity, domain=None, range=Optional[str]) + +slots.add_recov_method = Slot(uri=MIXS['0001009'], name="add_recov_method", curie=MIXS.curie('0001009'), + model_uri=NMDC_SUB_SCHEMA.add_recov_method, domain=None, range=Optional[str]) + +slots.additional_info = Slot(uri=MIXS['0000300'], name="additional_info", curie=MIXS.curie('0000300'), + model_uri=NMDC_SUB_SCHEMA.additional_info, domain=None, range=Optional[str]) + +slots.address = Slot(uri=MIXS['0000218'], name="address", curie=MIXS.curie('0000218'), + model_uri=NMDC_SUB_SCHEMA.address, domain=None, range=Optional[str]) + +slots.adj_room = Slot(uri=MIXS['0000219'], name="adj_room", curie=MIXS.curie('0000219'), + model_uri=NMDC_SUB_SCHEMA.adj_room, domain=None, range=Optional[str]) + +slots.aero_struc = Slot(uri=MIXS['0000773'], name="aero_struc", curie=MIXS.curie('0000773'), + model_uri=NMDC_SUB_SCHEMA.aero_struc, domain=None, range=Optional[str]) + +slots.agrochem_addition = Slot(uri=MIXS['0000639'], name="agrochem_addition", curie=MIXS.curie('0000639'), + model_uri=NMDC_SUB_SCHEMA.agrochem_addition, domain=None, range=Optional[str]) + +slots.air_PM_concen = Slot(uri=MIXS['0000108'], name="air_PM_concen", curie=MIXS.curie('0000108'), + model_uri=NMDC_SUB_SCHEMA.air_PM_concen, domain=None, range=Optional[str]) + +slots.air_temp = Slot(uri=MIXS['0000124'], name="air_temp", curie=MIXS.curie('0000124'), + model_uri=NMDC_SUB_SCHEMA.air_temp, domain=None, range=Optional[str]) + +slots.air_temp_regm = Slot(uri=MIXS['0000551'], name="air_temp_regm", curie=MIXS.curie('0000551'), + model_uri=NMDC_SUB_SCHEMA.air_temp_regm, domain=None, range=Optional[str]) + +slots.al_sat = Slot(uri=MIXS['0000607'], name="al_sat", curie=MIXS.curie('0000607'), + model_uri=NMDC_SUB_SCHEMA.al_sat, domain=None, range=Optional[str]) + +slots.al_sat_meth = Slot(uri=MIXS['0000324'], name="al_sat_meth", curie=MIXS.curie('0000324'), + model_uri=NMDC_SUB_SCHEMA.al_sat_meth, domain=None, range=Optional[str]) + +slots.alkalinity = Slot(uri=MIXS['0000421'], name="alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.alkalinity, domain=None, range=Optional[str]) + +slots.alkalinity_method = Slot(uri=MIXS['0000298'], name="alkalinity_method", curie=MIXS.curie('0000298'), + model_uri=NMDC_SUB_SCHEMA.alkalinity_method, domain=None, range=Optional[str]) + +slots.alkyl_diethers = Slot(uri=MIXS['0000490'], name="alkyl_diethers", curie=MIXS.curie('0000490'), + model_uri=NMDC_SUB_SCHEMA.alkyl_diethers, domain=None, range=Optional[str]) + +slots.alt = Slot(uri=MIXS['0000094'], name="alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.alt, domain=None, range=Optional[str]) + +slots.aminopept_act = Slot(uri=MIXS['0000172'], name="aminopept_act", curie=MIXS.curie('0000172'), + model_uri=NMDC_SUB_SCHEMA.aminopept_act, domain=None, range=Optional[str]) + +slots.ammonium = Slot(uri=MIXS['0000427'], name="ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.ammonium, domain=None, range=Optional[str]) + +slots.ammonium_nitrogen = Slot(uri=NMDC_SUB_SCHEMA.ammonium_nitrogen, name="ammonium_nitrogen", curie=NMDC_SUB_SCHEMA.curie('ammonium_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.ammonium_nitrogen, domain=None, range=Optional[str]) + +slots.amount_light = Slot(uri=MIXS['0000140'], name="amount_light", curie=MIXS.curie('0000140'), + model_uri=NMDC_SUB_SCHEMA.amount_light, domain=None, range=Optional[str]) + +slots.analysis_type = Slot(uri=NMDC_SUB_SCHEMA.analysis_type, name="analysis_type", curie=NMDC_SUB_SCHEMA.curie('analysis_type'), + model_uri=NMDC_SUB_SCHEMA.analysis_type, domain=None, range=Optional[Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]]]) + +slots.ances_data = Slot(uri=MIXS['0000247'], name="ances_data", curie=MIXS.curie('0000247'), + model_uri=NMDC_SUB_SCHEMA.ances_data, domain=None, range=Optional[str]) + +slots.annual_precpt = Slot(uri=MIXS['0000644'], name="annual_precpt", curie=MIXS.curie('0000644'), + model_uri=NMDC_SUB_SCHEMA.annual_precpt, domain=None, range=Optional[str]) + +slots.annual_temp = Slot(uri=MIXS['0000642'], name="annual_temp", curie=MIXS.curie('0000642'), + model_uri=NMDC_SUB_SCHEMA.annual_temp, domain=None, range=Optional[str]) + +slots.antibiotic_regm = Slot(uri=MIXS['0000553'], name="antibiotic_regm", curie=MIXS.curie('0000553'), + model_uri=NMDC_SUB_SCHEMA.antibiotic_regm, domain=None, range=Optional[str]) + +slots.api = Slot(uri=MIXS['0000157'], name="api", curie=MIXS.curie('0000157'), + model_uri=NMDC_SUB_SCHEMA.api, domain=None, range=Optional[str]) + +slots.arch_struc = Slot(uri=MIXS['0000774'], name="arch_struc", curie=MIXS.curie('0000774'), + model_uri=NMDC_SUB_SCHEMA.arch_struc, domain=None, range=Optional[Union[str, "ArchStrucEnum"]]) + +slots.aromatics_pc = Slot(uri=MIXS['0000133'], name="aromatics_pc", curie=MIXS.curie('0000133'), + model_uri=NMDC_SUB_SCHEMA.aromatics_pc, domain=None, range=Optional[str]) + +slots.asphaltenes_pc = Slot(uri=MIXS['0000135'], name="asphaltenes_pc", curie=MIXS.curie('0000135'), + model_uri=NMDC_SUB_SCHEMA.asphaltenes_pc, domain=None, range=Optional[str]) + +slots.atmospheric_data = Slot(uri=MIXS['0001097'], name="atmospheric_data", curie=MIXS.curie('0001097'), + model_uri=NMDC_SUB_SCHEMA.atmospheric_data, domain=None, range=Optional[str]) + +slots.avg_dew_point = Slot(uri=MIXS['0000141'], name="avg_dew_point", curie=MIXS.curie('0000141'), + model_uri=NMDC_SUB_SCHEMA.avg_dew_point, domain=None, range=Optional[str]) + +slots.avg_occup = Slot(uri=MIXS['0000775'], name="avg_occup", curie=MIXS.curie('0000775'), + model_uri=NMDC_SUB_SCHEMA.avg_occup, domain=None, range=Optional[str]) + +slots.avg_temp = Slot(uri=MIXS['0000142'], name="avg_temp", curie=MIXS.curie('0000142'), + model_uri=NMDC_SUB_SCHEMA.avg_temp, domain=None, range=Optional[str]) + +slots.bac_prod = Slot(uri=MIXS['0000683'], name="bac_prod", curie=MIXS.curie('0000683'), + model_uri=NMDC_SUB_SCHEMA.bac_prod, domain=None, range=Optional[str]) + +slots.bac_resp = Slot(uri=MIXS['0000684'], name="bac_resp", curie=MIXS.curie('0000684'), + model_uri=NMDC_SUB_SCHEMA.bac_resp, domain=None, range=Optional[str]) + +slots.bacteria_carb_prod = Slot(uri=MIXS['0000173'], name="bacteria_carb_prod", curie=MIXS.curie('0000173'), + model_uri=NMDC_SUB_SCHEMA.bacteria_carb_prod, domain=None, range=Optional[str]) + +slots.barometric_press = Slot(uri=MIXS['0000096'], name="barometric_press", curie=MIXS.curie('0000096'), + model_uri=NMDC_SUB_SCHEMA.barometric_press, domain=None, range=Optional[str]) + +slots.basin = Slot(uri=MIXS['0000290'], name="basin", curie=MIXS.curie('0000290'), + model_uri=NMDC_SUB_SCHEMA.basin, domain=None, range=Optional[str]) + +slots.bathroom_count = Slot(uri=MIXS['0000776'], name="bathroom_count", curie=MIXS.curie('0000776'), + model_uri=NMDC_SUB_SCHEMA.bathroom_count, domain=None, range=Optional[str]) + +slots.bedroom_count = Slot(uri=MIXS['0000777'], name="bedroom_count", curie=MIXS.curie('0000777'), + model_uri=NMDC_SUB_SCHEMA.bedroom_count, domain=None, range=Optional[str]) + +slots.benzene = Slot(uri=MIXS['0000153'], name="benzene", curie=MIXS.curie('0000153'), + model_uri=NMDC_SUB_SCHEMA.benzene, domain=None, range=Optional[str]) + +slots.biochem_oxygen_dem = Slot(uri=MIXS['0000653'], name="biochem_oxygen_dem", curie=MIXS.curie('0000653'), + model_uri=NMDC_SUB_SCHEMA.biochem_oxygen_dem, domain=None, range=Optional[str]) + +slots.biocide = Slot(uri=MIXS['0001011'], name="biocide", curie=MIXS.curie('0001011'), + model_uri=NMDC_SUB_SCHEMA.biocide, domain=None, range=Optional[str]) + +slots.biocide_admin_method = Slot(uri=MIXS['0000456'], name="biocide_admin_method", curie=MIXS.curie('0000456'), + model_uri=NMDC_SUB_SCHEMA.biocide_admin_method, domain=None, range=Optional[str]) + +slots.biol_stat = Slot(uri=MIXS['0000858'], name="biol_stat", curie=MIXS.curie('0000858'), + model_uri=NMDC_SUB_SCHEMA.biol_stat, domain=None, range=Optional[Union[str, "BiolStatEnum"]]) + +slots.biomass = Slot(uri=MIXS['0000174'], name="biomass", curie=MIXS.curie('0000174'), + model_uri=NMDC_SUB_SCHEMA.biomass, domain=None, range=Optional[str]) + +slots.biotic_regm = Slot(uri=MIXS['0001038'], name="biotic_regm", curie=MIXS.curie('0001038'), + model_uri=NMDC_SUB_SCHEMA.biotic_regm, domain=None, range=Optional[str]) + +slots.biotic_relationship = Slot(uri=MIXS['0000028'], name="biotic_relationship", curie=MIXS.curie('0000028'), + model_uri=NMDC_SUB_SCHEMA.biotic_relationship, domain=None, range=Optional[Union[str, "BioticRelationshipEnum"]]) + +slots.bishomohopanol = Slot(uri=MIXS['0000175'], name="bishomohopanol", curie=MIXS.curie('0000175'), + model_uri=NMDC_SUB_SCHEMA.bishomohopanol, domain=None, range=Optional[str]) + +slots.blood_press_diast = Slot(uri=MIXS['0000258'], name="blood_press_diast", curie=MIXS.curie('0000258'), + model_uri=NMDC_SUB_SCHEMA.blood_press_diast, domain=None, range=Optional[str]) + +slots.blood_press_syst = Slot(uri=MIXS['0000259'], name="blood_press_syst", curie=MIXS.curie('0000259'), + model_uri=NMDC_SUB_SCHEMA.blood_press_syst, domain=None, range=Optional[str]) + +slots.bromide = Slot(uri=MIXS['0000176'], name="bromide", curie=MIXS.curie('0000176'), + model_uri=NMDC_SUB_SCHEMA.bromide, domain=None, range=Optional[str]) + +slots.build_docs = Slot(uri=MIXS['0000787'], name="build_docs", curie=MIXS.curie('0000787'), + model_uri=NMDC_SUB_SCHEMA.build_docs, domain=None, range=Optional[Union[str, "BuildDocsEnum"]]) + +slots.build_occup_type = Slot(uri=MIXS['0000761'], name="build_occup_type", curie=MIXS.curie('0000761'), + model_uri=NMDC_SUB_SCHEMA.build_occup_type, domain=None, range=Optional[Union[Union[str, "BuildOccupTypeEnum"], List[Union[str, "BuildOccupTypeEnum"]]]]) + +slots.building_setting = Slot(uri=MIXS['0000768'], name="building_setting", curie=MIXS.curie('0000768'), + model_uri=NMDC_SUB_SCHEMA.building_setting, domain=None, range=Optional[Union[str, "BuildingSettingEnum"]]) + +slots.built_struc_age = Slot(uri=MIXS['0000145'], name="built_struc_age", curie=MIXS.curie('0000145'), + model_uri=NMDC_SUB_SCHEMA.built_struc_age, domain=None, range=Optional[str]) + +slots.built_struc_set = Slot(uri=MIXS['0000778'], name="built_struc_set", curie=MIXS.curie('0000778'), + model_uri=NMDC_SUB_SCHEMA.built_struc_set, domain=None, range=Optional[str]) + +slots.built_struc_type = Slot(uri=MIXS['0000721'], name="built_struc_type", curie=MIXS.curie('0000721'), + model_uri=NMDC_SUB_SCHEMA.built_struc_type, domain=None, range=Optional[str]) + +slots.calcium = Slot(uri=MIXS['0000432'], name="calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.calcium, domain=None, range=Optional[str]) + +slots.carb_dioxide = Slot(uri=MIXS['0000097'], name="carb_dioxide", curie=MIXS.curie('0000097'), + model_uri=NMDC_SUB_SCHEMA.carb_dioxide, domain=None, range=Optional[str]) + +slots.carb_monoxide = Slot(uri=MIXS['0000098'], name="carb_monoxide", curie=MIXS.curie('0000098'), + model_uri=NMDC_SUB_SCHEMA.carb_monoxide, domain=None, range=Optional[str]) + +slots.carb_nitro_ratio = Slot(uri=MIXS['0000310'], name="carb_nitro_ratio", curie=MIXS.curie('0000310'), + model_uri=NMDC_SUB_SCHEMA.carb_nitro_ratio, domain=None, range=Optional[str]) + +slots.ceil_area = Slot(uri=MIXS['0000148'], name="ceil_area", curie=MIXS.curie('0000148'), + model_uri=NMDC_SUB_SCHEMA.ceil_area, domain=None, range=Optional[str]) + +slots.ceil_cond = Slot(uri=MIXS['0000779'], name="ceil_cond", curie=MIXS.curie('0000779'), + model_uri=NMDC_SUB_SCHEMA.ceil_cond, domain=None, range=Optional[Union[str, "CeilCondEnum"]]) + +slots.ceil_finish_mat = Slot(uri=MIXS['0000780'], name="ceil_finish_mat", curie=MIXS.curie('0000780'), + model_uri=NMDC_SUB_SCHEMA.ceil_finish_mat, domain=None, range=Optional[Union[str, "CeilFinishMatEnum"]]) + +slots.ceil_struc = Slot(uri=MIXS['0000782'], name="ceil_struc", curie=MIXS.curie('0000782'), + model_uri=NMDC_SUB_SCHEMA.ceil_struc, domain=None, range=Optional[str]) + +slots.ceil_texture = Slot(uri=MIXS['0000783'], name="ceil_texture", curie=MIXS.curie('0000783'), + model_uri=NMDC_SUB_SCHEMA.ceil_texture, domain=None, range=Optional[Union[str, "CeilTextureEnum"]]) + +slots.ceil_thermal_mass = Slot(uri=MIXS['0000143'], name="ceil_thermal_mass", curie=MIXS.curie('0000143'), + model_uri=NMDC_SUB_SCHEMA.ceil_thermal_mass, domain=None, range=Optional[str]) + +slots.ceil_type = Slot(uri=MIXS['0000784'], name="ceil_type", curie=MIXS.curie('0000784'), + model_uri=NMDC_SUB_SCHEMA.ceil_type, domain=None, range=Optional[Union[str, "CeilTypeEnum"]]) + +slots.ceil_water_mold = Slot(uri=MIXS['0000781'], name="ceil_water_mold", curie=MIXS.curie('0000781'), + model_uri=NMDC_SUB_SCHEMA.ceil_water_mold, domain=None, range=Optional[str]) + +slots.chem_administration = Slot(uri=MIXS['0000751'], name="chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.chem_administration, domain=None, range=Optional[str]) + +slots.chem_mutagen = Slot(uri=MIXS['0000555'], name="chem_mutagen", curie=MIXS.curie('0000555'), + model_uri=NMDC_SUB_SCHEMA.chem_mutagen, domain=None, range=Optional[str]) + +slots.chem_oxygen_dem = Slot(uri=MIXS['0000656'], name="chem_oxygen_dem", curie=MIXS.curie('0000656'), + model_uri=NMDC_SUB_SCHEMA.chem_oxygen_dem, domain=None, range=Optional[str]) + +slots.chem_treat_method = Slot(uri=MIXS['0000457'], name="chem_treat_method", curie=MIXS.curie('0000457'), + model_uri=NMDC_SUB_SCHEMA.chem_treat_method, domain=None, range=Optional[str]) + +slots.chem_treatment = Slot(uri=MIXS['0001012'], name="chem_treatment", curie=MIXS.curie('0001012'), + model_uri=NMDC_SUB_SCHEMA.chem_treatment, domain=None, range=Optional[str]) + +slots.chloride = Slot(uri=MIXS['0000429'], name="chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.chloride, domain=None, range=Optional[str]) + +slots.chlorophyll = Slot(uri=MIXS['0000177'], name="chlorophyll", curie=MIXS.curie('0000177'), + model_uri=NMDC_SUB_SCHEMA.chlorophyll, domain=None, range=Optional[str]) + +slots.climate_environment = Slot(uri=MIXS['0001040'], name="climate_environment", curie=MIXS.curie('0001040'), + model_uri=NMDC_SUB_SCHEMA.climate_environment, domain=None, range=Optional[str]) + +slots.collection_date = Slot(uri=MIXS['0000011'], name="collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.collection_date, domain=None, range=Optional[str]) + +slots.collection_date_inc = Slot(uri=NMDC_SUB_SCHEMA.collection_date_inc, name="collection_date_inc", curie=NMDC_SUB_SCHEMA.curie('collection_date_inc'), + model_uri=NMDC_SUB_SCHEMA.collection_date_inc, domain=None, range=Optional[str]) + +slots.collection_time = Slot(uri=NMDC_SUB_SCHEMA.collection_time, name="collection_time", curie=NMDC_SUB_SCHEMA.curie('collection_time'), + model_uri=NMDC_SUB_SCHEMA.collection_time, domain=None, range=Optional[str]) + +slots.collection_time_inc = Slot(uri=NMDC_SUB_SCHEMA.collection_time_inc, name="collection_time_inc", curie=NMDC_SUB_SCHEMA.curie('collection_time_inc'), + model_uri=NMDC_SUB_SCHEMA.collection_time_inc, domain=None, range=Optional[str]) + +slots.conduc = Slot(uri=MIXS['0000692'], name="conduc", curie=MIXS.curie('0000692'), + model_uri=NMDC_SUB_SCHEMA.conduc, domain=None, range=Optional[str]) + +slots.cool_syst_id = Slot(uri=MIXS['0000785'], name="cool_syst_id", curie=MIXS.curie('0000785'), + model_uri=NMDC_SUB_SCHEMA.cool_syst_id, domain=None, range=Optional[str]) + +slots.crop_rotation = Slot(uri=MIXS['0000318'], name="crop_rotation", curie=MIXS.curie('0000318'), + model_uri=NMDC_SUB_SCHEMA.crop_rotation, domain=None, range=Optional[str]) + +slots.cult_root_med = Slot(uri=MIXS['0001041'], name="cult_root_med", curie=MIXS.curie('0001041'), + model_uri=NMDC_SUB_SCHEMA.cult_root_med, domain=None, range=Optional[str]) + +slots.cur_land_use = Slot(uri=MIXS['0001080'], name="cur_land_use", curie=MIXS.curie('0001080'), + model_uri=NMDC_SUB_SCHEMA.cur_land_use, domain=None, range=Optional[Union[str, "CurLandUseEnum"]]) + +slots.cur_vegetation = Slot(uri=MIXS['0000312'], name="cur_vegetation", curie=MIXS.curie('0000312'), + model_uri=NMDC_SUB_SCHEMA.cur_vegetation, domain=None, range=Optional[str]) + +slots.cur_vegetation_meth = Slot(uri=MIXS['0000314'], name="cur_vegetation_meth", curie=MIXS.curie('0000314'), + model_uri=NMDC_SUB_SCHEMA.cur_vegetation_meth, domain=None, range=Optional[str]) + +slots.date_last_rain = Slot(uri=MIXS['0000786'], name="date_last_rain", curie=MIXS.curie('0000786'), + model_uri=NMDC_SUB_SCHEMA.date_last_rain, domain=None, range=Optional[str]) + +slots.density = Slot(uri=MIXS['0000435'], name="density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.density, domain=None, range=Optional[str]) + +slots.depos_env = Slot(uri=MIXS['0000992'], name="depos_env", curie=MIXS.curie('0000992'), + model_uri=NMDC_SUB_SCHEMA.depos_env, domain=None, range=Optional[Union[str, "DeposEnvEnum"]]) + +slots.depth = Slot(uri=MIXS['0000018'], name="depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.depth, domain=None, range=Optional[str]) + +slots.dew_point = Slot(uri=MIXS['0000129'], name="dew_point", curie=MIXS.curie('0000129'), + model_uri=NMDC_SUB_SCHEMA.dew_point, domain=None, range=Optional[str]) + +slots.diether_lipids = Slot(uri=MIXS['0000178'], name="diether_lipids", curie=MIXS.curie('0000178'), + model_uri=NMDC_SUB_SCHEMA.diether_lipids, domain=None, range=Optional[str]) + +slots.diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.diss_carb_dioxide, domain=None, range=Optional[str]) + +slots.diss_hydrogen = Slot(uri=MIXS['0000179'], name="diss_hydrogen", curie=MIXS.curie('0000179'), + model_uri=NMDC_SUB_SCHEMA.diss_hydrogen, domain=None, range=Optional[str]) + +slots.diss_inorg_carb = Slot(uri=MIXS['0000434'], name="diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.diss_inorg_carb, domain=None, range=Optional[str]) + +slots.diss_inorg_nitro = Slot(uri=MIXS['0000698'], name="diss_inorg_nitro", curie=MIXS.curie('0000698'), + model_uri=NMDC_SUB_SCHEMA.diss_inorg_nitro, domain=None, range=Optional[str]) + +slots.diss_inorg_phosp = Slot(uri=MIXS['0000106'], name="diss_inorg_phosp", curie=MIXS.curie('0000106'), + model_uri=NMDC_SUB_SCHEMA.diss_inorg_phosp, domain=None, range=Optional[str]) + +slots.diss_iron = Slot(uri=MIXS['0000139'], name="diss_iron", curie=MIXS.curie('0000139'), + model_uri=NMDC_SUB_SCHEMA.diss_iron, domain=None, range=Optional[str]) + +slots.diss_org_carb = Slot(uri=MIXS['0000433'], name="diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.diss_org_carb, domain=None, range=Optional[str]) + +slots.diss_org_nitro = Slot(uri=MIXS['0000162'], name="diss_org_nitro", curie=MIXS.curie('0000162'), + model_uri=NMDC_SUB_SCHEMA.diss_org_nitro, domain=None, range=Optional[str]) + +slots.diss_oxygen = Slot(uri=MIXS['0000119'], name="diss_oxygen", curie=MIXS.curie('0000119'), + model_uri=NMDC_SUB_SCHEMA.diss_oxygen, domain=None, range=Optional[str]) + +slots.diss_oxygen_fluid = Slot(uri=MIXS['0000438'], name="diss_oxygen_fluid", curie=MIXS.curie('0000438'), + model_uri=NMDC_SUB_SCHEMA.diss_oxygen_fluid, domain=None, range=Optional[str]) + +slots.dna_absorb1 = Slot(uri=NMDC_SUB_SCHEMA.dna_absorb1, name="dna_absorb1", curie=NMDC_SUB_SCHEMA.curie('dna_absorb1'), + model_uri=NMDC_SUB_SCHEMA.dna_absorb1, domain=None, range=Optional[float]) + +slots.dna_absorb2 = Slot(uri=NMDC_SUB_SCHEMA.dna_absorb2, name="dna_absorb2", curie=NMDC_SUB_SCHEMA.curie('dna_absorb2'), + model_uri=NMDC_SUB_SCHEMA.dna_absorb2, domain=None, range=Optional[float]) + +slots.dna_concentration = Slot(uri=NMDC_SUB_SCHEMA.dna_concentration, name="dna_concentration", curie=NMDC_SUB_SCHEMA.curie('dna_concentration'), + model_uri=NMDC_SUB_SCHEMA.dna_concentration, domain=None, range=Optional[float]) + +slots.dna_cont_type = Slot(uri=NMDC_SUB_SCHEMA.dna_cont_type, name="dna_cont_type", curie=NMDC_SUB_SCHEMA.curie('dna_cont_type'), + model_uri=NMDC_SUB_SCHEMA.dna_cont_type, domain=None, range=Optional[Union[str, "JgiContTypeEnum"]]) + +slots.dna_cont_well = Slot(uri=NMDC_SUB_SCHEMA.dna_cont_well, name="dna_cont_well", curie=NMDC_SUB_SCHEMA.curie('dna_cont_well'), + model_uri=NMDC_SUB_SCHEMA.dna_cont_well, domain=None, range=Optional[str], + pattern=re.compile(r'^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$')) + +slots.dna_container_id = Slot(uri=NMDC_SUB_SCHEMA.dna_container_id, name="dna_container_id", curie=NMDC_SUB_SCHEMA.curie('dna_container_id'), + model_uri=NMDC_SUB_SCHEMA.dna_container_id, domain=None, range=Optional[str]) + +slots.dna_dnase = Slot(uri=NMDC_SUB_SCHEMA.dna_dnase, name="dna_dnase", curie=NMDC_SUB_SCHEMA.curie('dna_dnase'), + model_uri=NMDC_SUB_SCHEMA.dna_dnase, domain=None, range=Optional[Union[str, "YesNoEnum"]]) + +slots.dna_isolate_meth = Slot(uri=NMDC_SUB_SCHEMA.dna_isolate_meth, name="dna_isolate_meth", curie=NMDC_SUB_SCHEMA.curie('dna_isolate_meth'), + model_uri=NMDC_SUB_SCHEMA.dna_isolate_meth, domain=None, range=Optional[str]) + +slots.dna_project_contact = Slot(uri=NMDC_SUB_SCHEMA.dna_project_contact, name="dna_project_contact", curie=NMDC_SUB_SCHEMA.curie('dna_project_contact'), + model_uri=NMDC_SUB_SCHEMA.dna_project_contact, domain=None, range=Optional[str]) + +slots.dna_samp_id = Slot(uri=NMDC_SUB_SCHEMA.dna_samp_id, name="dna_samp_id", curie=NMDC_SUB_SCHEMA.curie('dna_samp_id'), + model_uri=NMDC_SUB_SCHEMA.dna_samp_id, domain=None, range=Optional[str]) + +slots.dna_sample_format = Slot(uri=NMDC_SUB_SCHEMA.dna_sample_format, name="dna_sample_format", curie=NMDC_SUB_SCHEMA.curie('dna_sample_format'), + model_uri=NMDC_SUB_SCHEMA.dna_sample_format, domain=None, range=Optional[Union[str, "DnaSampleFormatEnum"]]) + +slots.dna_sample_name = Slot(uri=NMDC_SUB_SCHEMA.dna_sample_name, name="dna_sample_name", curie=NMDC_SUB_SCHEMA.curie('dna_sample_name'), + model_uri=NMDC_SUB_SCHEMA.dna_sample_name, domain=None, range=Optional[str]) + +slots.dna_seq_project = Slot(uri=NMDC_SUB_SCHEMA.dna_seq_project, name="dna_seq_project", curie=NMDC_SUB_SCHEMA.curie('dna_seq_project'), + model_uri=NMDC_SUB_SCHEMA.dna_seq_project, domain=None, range=Optional[str]) + +slots.dna_seq_project_name = Slot(uri=NMDC_SUB_SCHEMA.dna_seq_project_name, name="dna_seq_project_name", curie=NMDC_SUB_SCHEMA.curie('dna_seq_project_name'), + model_uri=NMDC_SUB_SCHEMA.dna_seq_project_name, domain=None, range=Optional[str]) + +slots.dna_seq_project_pi = Slot(uri=NMDC_SUB_SCHEMA.dna_seq_project_pi, name="dna_seq_project_pi", curie=NMDC_SUB_SCHEMA.curie('dna_seq_project_pi'), + model_uri=NMDC_SUB_SCHEMA.dna_seq_project_pi, domain=None, range=Optional[str]) + +slots.dna_volume = Slot(uri=NMDC_SUB_SCHEMA.dna_volume, name="dna_volume", curie=NMDC_SUB_SCHEMA.curie('dna_volume'), + model_uri=NMDC_SUB_SCHEMA.dna_volume, domain=None, range=Optional[float]) + +slots.dnase_rna = Slot(uri=NMDC_SUB_SCHEMA.dnase_rna, name="dnase_rna", curie=NMDC_SUB_SCHEMA.curie('dnase_rna'), + model_uri=NMDC_SUB_SCHEMA.dnase_rna, domain=None, range=Optional[Union[str, "YesNoEnum"]]) + +slots.door_comp_type = Slot(uri=MIXS['0000795'], name="door_comp_type", curie=MIXS.curie('0000795'), + model_uri=NMDC_SUB_SCHEMA.door_comp_type, domain=None, range=Optional[Union[str, "DoorCompTypeEnum"]]) + +slots.door_cond = Slot(uri=MIXS['0000788'], name="door_cond", curie=MIXS.curie('0000788'), + model_uri=NMDC_SUB_SCHEMA.door_cond, domain=None, range=Optional[Union[str, "DoorCondEnum"]]) + +slots.door_direct = Slot(uri=MIXS['0000789'], name="door_direct", curie=MIXS.curie('0000789'), + model_uri=NMDC_SUB_SCHEMA.door_direct, domain=None, range=Optional[Union[str, "DoorDirectEnum"]]) + +slots.door_loc = Slot(uri=MIXS['0000790'], name="door_loc", curie=MIXS.curie('0000790'), + model_uri=NMDC_SUB_SCHEMA.door_loc, domain=None, range=Optional[Union[str, "DoorLocEnum"]]) + +slots.door_mat = Slot(uri=MIXS['0000791'], name="door_mat", curie=MIXS.curie('0000791'), + model_uri=NMDC_SUB_SCHEMA.door_mat, domain=None, range=Optional[Union[str, "DoorMatEnum"]]) + +slots.door_move = Slot(uri=MIXS['0000792'], name="door_move", curie=MIXS.curie('0000792'), + model_uri=NMDC_SUB_SCHEMA.door_move, domain=None, range=Optional[Union[str, "DoorMoveEnum"]]) + +slots.door_size = Slot(uri=MIXS['0000158'], name="door_size", curie=MIXS.curie('0000158'), + model_uri=NMDC_SUB_SCHEMA.door_size, domain=None, range=Optional[str]) + +slots.door_type = Slot(uri=MIXS['0000794'], name="door_type", curie=MIXS.curie('0000794'), + model_uri=NMDC_SUB_SCHEMA.door_type, domain=None, range=Optional[Union[str, "DoorTypeEnum"]]) + +slots.door_type_metal = Slot(uri=MIXS['0000796'], name="door_type_metal", curie=MIXS.curie('0000796'), + model_uri=NMDC_SUB_SCHEMA.door_type_metal, domain=None, range=Optional[Union[str, "DoorTypeMetalEnum"]]) + +slots.door_type_wood = Slot(uri=MIXS['0000797'], name="door_type_wood", curie=MIXS.curie('0000797'), + model_uri=NMDC_SUB_SCHEMA.door_type_wood, domain=None, range=Optional[Union[str, "DoorTypeWoodEnum"]]) + +slots.door_water_mold = Slot(uri=MIXS['0000793'], name="door_water_mold", curie=MIXS.curie('0000793'), + model_uri=NMDC_SUB_SCHEMA.door_water_mold, domain=None, range=Optional[str]) + +slots.down_par = Slot(uri=MIXS['0000703'], name="down_par", curie=MIXS.curie('0000703'), + model_uri=NMDC_SUB_SCHEMA.down_par, domain=None, range=Optional[str]) + +slots.drainage_class = Slot(uri=MIXS['0001085'], name="drainage_class", curie=MIXS.curie('0001085'), + model_uri=NMDC_SUB_SCHEMA.drainage_class, domain=None, range=Optional[Union[str, "DrainageClassEnum"]]) + +slots.drawings = Slot(uri=MIXS['0000798'], name="drawings", curie=MIXS.curie('0000798'), + model_uri=NMDC_SUB_SCHEMA.drawings, domain=None, range=Optional[Union[str, "DrawingsEnum"]]) + +slots.ecosystem = Slot(uri=NMDC_SUB_SCHEMA.ecosystem, name="ecosystem", curie=NMDC_SUB_SCHEMA.curie('ecosystem'), + model_uri=NMDC_SUB_SCHEMA.ecosystem, domain=None, range=Optional[str]) + +slots.ecosystem_category = Slot(uri=NMDC_SUB_SCHEMA.ecosystem_category, name="ecosystem_category", curie=NMDC_SUB_SCHEMA.curie('ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.ecosystem_category, domain=None, range=Optional[str]) + +slots.ecosystem_subtype = Slot(uri=NMDC_SUB_SCHEMA.ecosystem_subtype, name="ecosystem_subtype", curie=NMDC_SUB_SCHEMA.curie('ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.ecosystem_subtype, domain=None, range=Optional[str]) + +slots.ecosystem_type = Slot(uri=NMDC_SUB_SCHEMA.ecosystem_type, name="ecosystem_type", curie=NMDC_SUB_SCHEMA.curie('ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.ecosystem_type, domain=None, range=Optional[str]) + +slots.efficiency_percent = Slot(uri=MIXS['0000657'], name="efficiency_percent", curie=MIXS.curie('0000657'), + model_uri=NMDC_SUB_SCHEMA.efficiency_percent, domain=None, range=Optional[str]) + +slots.elev = Slot(uri=MIXS['0000093'], name="elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.elev, domain=None, range=Optional[str]) + +slots.elevator = Slot(uri=MIXS['0000799'], name="elevator", curie=MIXS.curie('0000799'), + model_uri=NMDC_SUB_SCHEMA.elevator, domain=None, range=Optional[str]) + +slots.emsl_store_temp = Slot(uri=NMDC_SUB_SCHEMA.emsl_store_temp, name="emsl_store_temp", curie=NMDC_SUB_SCHEMA.curie('emsl_store_temp'), + model_uri=NMDC_SUB_SCHEMA.emsl_store_temp, domain=None, range=Optional[str]) + +slots.emulsions = Slot(uri=MIXS['0000660'], name="emulsions", curie=MIXS.curie('0000660'), + model_uri=NMDC_SUB_SCHEMA.emulsions, domain=None, range=Optional[str]) + +slots.env_broad_scale = Slot(uri=MIXS['0000012'], name="env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.env_broad_scale, domain=None, range=Optional[str]) + +slots.env_local_scale = Slot(uri=MIXS['0000013'], name="env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.env_local_scale, domain=None, range=Optional[str]) + +slots.env_medium = Slot(uri=MIXS['0000014'], name="env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.env_medium, domain=None, range=Optional[str]) + +slots.env_package = Slot(uri=NMDC_SUB_SCHEMA.env_package, name="env_package", curie=NMDC_SUB_SCHEMA.curie('env_package'), + model_uri=NMDC_SUB_SCHEMA.env_package, domain=None, range=Optional[str]) + +slots.escalator = Slot(uri=MIXS['0000800'], name="escalator", curie=MIXS.curie('0000800'), + model_uri=NMDC_SUB_SCHEMA.escalator, domain=None, range=Optional[str]) + +slots.ethylbenzene = Slot(uri=MIXS['0000155'], name="ethylbenzene", curie=MIXS.curie('0000155'), + model_uri=NMDC_SUB_SCHEMA.ethylbenzene, domain=None, range=Optional[str]) + +slots.exp_duct = Slot(uri=MIXS['0000144'], name="exp_duct", curie=MIXS.curie('0000144'), + model_uri=NMDC_SUB_SCHEMA.exp_duct, domain=None, range=Optional[str]) + +slots.exp_pipe = Slot(uri=MIXS['0000220'], name="exp_pipe", curie=MIXS.curie('0000220'), + model_uri=NMDC_SUB_SCHEMA.exp_pipe, domain=None, range=Optional[str]) + +slots.experimental_factor = Slot(uri=MIXS['0000008'], name="experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.experimental_factor, domain=None, range=Optional[str]) + +slots.experimental_factor_other = Slot(uri=NMDC_SUB_SCHEMA.experimental_factor_other, name="experimental_factor_other", curie=NMDC_SUB_SCHEMA.curie('experimental_factor_other'), + model_uri=NMDC_SUB_SCHEMA.experimental_factor_other, domain=None, range=Optional[str]) + +slots.ext_door = Slot(uri=MIXS['0000170'], name="ext_door", curie=MIXS.curie('0000170'), + model_uri=NMDC_SUB_SCHEMA.ext_door, domain=None, range=Optional[str]) + +slots.ext_wall_orient = Slot(uri=MIXS['0000817'], name="ext_wall_orient", curie=MIXS.curie('0000817'), + model_uri=NMDC_SUB_SCHEMA.ext_wall_orient, domain=None, range=Optional[Union[str, "ExtWallOrientEnum"]]) + +slots.ext_window_orient = Slot(uri=MIXS['0000818'], name="ext_window_orient", curie=MIXS.curie('0000818'), + model_uri=NMDC_SUB_SCHEMA.ext_window_orient, domain=None, range=Optional[Union[str, "ExtWindowOrientEnum"]]) + +slots.extreme_event = Slot(uri=MIXS['0000320'], name="extreme_event", curie=MIXS.curie('0000320'), + model_uri=NMDC_SUB_SCHEMA.extreme_event, domain=None, range=Optional[str]) + +slots.fao_class = Slot(uri=MIXS['0001083'], name="fao_class", curie=MIXS.curie('0001083'), + model_uri=NMDC_SUB_SCHEMA.fao_class, domain=None, range=Optional[Union[str, "FaoClassEnum"]]) + +slots.fertilizer_regm = Slot(uri=MIXS['0000556'], name="fertilizer_regm", curie=MIXS.curie('0000556'), + model_uri=NMDC_SUB_SCHEMA.fertilizer_regm, domain=None, range=Optional[str]) + +slots.field = Slot(uri=MIXS['0000291'], name="field", curie=MIXS.curie('0000291'), + model_uri=NMDC_SUB_SCHEMA.field, domain=None, range=Optional[str]) + +slots.filter_method = Slot(uri=NMDC_SUB_SCHEMA.filter_method, name="filter_method", curie=NMDC_SUB_SCHEMA.curie('filter_method'), + model_uri=NMDC_SUB_SCHEMA.filter_method, domain=None, range=Optional[str]) + +slots.filter_type = Slot(uri=MIXS['0000765'], name="filter_type", curie=MIXS.curie('0000765'), + model_uri=NMDC_SUB_SCHEMA.filter_type, domain=None, range=Optional[Union[Union[str, "FilterTypeEnum"], List[Union[str, "FilterTypeEnum"]]]]) + +slots.fire = Slot(uri=MIXS['0001086'], name="fire", curie=MIXS.curie('0001086'), + model_uri=NMDC_SUB_SCHEMA.fire, domain=None, range=Optional[str]) + +slots.fireplace_type = Slot(uri=MIXS['0000802'], name="fireplace_type", curie=MIXS.curie('0000802'), + model_uri=NMDC_SUB_SCHEMA.fireplace_type, domain=None, range=Optional[str]) + +slots.flooding = Slot(uri=MIXS['0000319'], name="flooding", curie=MIXS.curie('0000319'), + model_uri=NMDC_SUB_SCHEMA.flooding, domain=None, range=Optional[str]) + +slots.floor_age = Slot(uri=MIXS['0000164'], name="floor_age", curie=MIXS.curie('0000164'), + model_uri=NMDC_SUB_SCHEMA.floor_age, domain=None, range=Optional[str]) + +slots.floor_area = Slot(uri=MIXS['0000165'], name="floor_area", curie=MIXS.curie('0000165'), + model_uri=NMDC_SUB_SCHEMA.floor_area, domain=None, range=Optional[str]) + +slots.floor_cond = Slot(uri=MIXS['0000803'], name="floor_cond", curie=MIXS.curie('0000803'), + model_uri=NMDC_SUB_SCHEMA.floor_cond, domain=None, range=Optional[Union[str, "FloorCondEnum"]]) + +slots.floor_count = Slot(uri=MIXS['0000225'], name="floor_count", curie=MIXS.curie('0000225'), + model_uri=NMDC_SUB_SCHEMA.floor_count, domain=None, range=Optional[str]) + +slots.floor_finish_mat = Slot(uri=MIXS['0000804'], name="floor_finish_mat", curie=MIXS.curie('0000804'), + model_uri=NMDC_SUB_SCHEMA.floor_finish_mat, domain=None, range=Optional[Union[str, "FloorFinishMatEnum"]]) + +slots.floor_struc = Slot(uri=MIXS['0000806'], name="floor_struc", curie=MIXS.curie('0000806'), + model_uri=NMDC_SUB_SCHEMA.floor_struc, domain=None, range=Optional[Union[str, "FloorStrucEnum"]]) + +slots.floor_thermal_mass = Slot(uri=MIXS['0000166'], name="floor_thermal_mass", curie=MIXS.curie('0000166'), + model_uri=NMDC_SUB_SCHEMA.floor_thermal_mass, domain=None, range=Optional[str]) + +slots.floor_water_mold = Slot(uri=MIXS['0000805'], name="floor_water_mold", curie=MIXS.curie('0000805'), + model_uri=NMDC_SUB_SCHEMA.floor_water_mold, domain=None, range=Optional[Union[str, "FloorWaterMoldEnum"]]) + +slots.fluor = Slot(uri=MIXS['0000704'], name="fluor", curie=MIXS.curie('0000704'), + model_uri=NMDC_SUB_SCHEMA.fluor, domain=None, range=Optional[str]) + +slots.freq_clean = Slot(uri=MIXS['0000226'], name="freq_clean", curie=MIXS.curie('0000226'), + model_uri=NMDC_SUB_SCHEMA.freq_clean, domain=None, range=Optional[str]) + +slots.freq_cook = Slot(uri=MIXS['0000227'], name="freq_cook", curie=MIXS.curie('0000227'), + model_uri=NMDC_SUB_SCHEMA.freq_cook, domain=None, range=Optional[str]) + +slots.fungicide_regm = Slot(uri=MIXS['0000557'], name="fungicide_regm", curie=MIXS.curie('0000557'), + model_uri=NMDC_SUB_SCHEMA.fungicide_regm, domain=None, range=Optional[str]) + +slots.furniture = Slot(uri=MIXS['0000807'], name="furniture", curie=MIXS.curie('0000807'), + model_uri=NMDC_SUB_SCHEMA.furniture, domain=None, range=Optional[Union[str, "FurnitureEnum"]]) + +slots.gaseous_environment = Slot(uri=MIXS['0000558'], name="gaseous_environment", curie=MIXS.curie('0000558'), + model_uri=NMDC_SUB_SCHEMA.gaseous_environment, domain=None, range=Optional[str]) + +slots.gaseous_substances = Slot(uri=MIXS['0000661'], name="gaseous_substances", curie=MIXS.curie('0000661'), + model_uri=NMDC_SUB_SCHEMA.gaseous_substances, domain=None, range=Optional[str]) + +slots.gender_restroom = Slot(uri=MIXS['0000808'], name="gender_restroom", curie=MIXS.curie('0000808'), + model_uri=NMDC_SUB_SCHEMA.gender_restroom, domain=None, range=Optional[Union[str, "GenderRestroomEnum"]]) + +slots.genetic_mod = Slot(uri=MIXS['0000859'], name="genetic_mod", curie=MIXS.curie('0000859'), + model_uri=NMDC_SUB_SCHEMA.genetic_mod, domain=None, range=Optional[str]) + +slots.geo_loc_name = Slot(uri=MIXS['0000010'], name="geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.geo_loc_name, domain=None, range=Optional[str]) + +slots.glucosidase_act = Slot(uri=MIXS['0000137'], name="glucosidase_act", curie=MIXS.curie('0000137'), + model_uri=NMDC_SUB_SCHEMA.glucosidase_act, domain=None, range=Optional[str]) + +slots.gravidity = Slot(uri=MIXS['0000875'], name="gravidity", curie=MIXS.curie('0000875'), + model_uri=NMDC_SUB_SCHEMA.gravidity, domain=None, range=Optional[str]) + +slots.gravity = Slot(uri=MIXS['0000559'], name="gravity", curie=MIXS.curie('0000559'), + model_uri=NMDC_SUB_SCHEMA.gravity, domain=None, range=Optional[str]) + +slots.growth_facil = Slot(uri=MIXS['0001043'], name="growth_facil", curie=MIXS.curie('0001043'), + model_uri=NMDC_SUB_SCHEMA.growth_facil, domain=None, range=Optional[str]) + +slots.growth_habit = Slot(uri=MIXS['0001044'], name="growth_habit", curie=MIXS.curie('0001044'), + model_uri=NMDC_SUB_SCHEMA.growth_habit, domain=None, range=Optional[Union[str, "GrowthHabitEnum"]]) + +slots.growth_hormone_regm = Slot(uri=MIXS['0000560'], name="growth_hormone_regm", curie=MIXS.curie('0000560'), + model_uri=NMDC_SUB_SCHEMA.growth_hormone_regm, domain=None, range=Optional[str]) + +slots.hall_count = Slot(uri=MIXS['0000228'], name="hall_count", curie=MIXS.curie('0000228'), + model_uri=NMDC_SUB_SCHEMA.hall_count, domain=None, range=Optional[str]) + +slots.handidness = Slot(uri=MIXS['0000809'], name="handidness", curie=MIXS.curie('0000809'), + model_uri=NMDC_SUB_SCHEMA.handidness, domain=None, range=Optional[Union[str, "HandidnessEnum"]]) + +slots.hc_produced = Slot(uri=MIXS['0000989'], name="hc_produced", curie=MIXS.curie('0000989'), + model_uri=NMDC_SUB_SCHEMA.hc_produced, domain=None, range=Optional[Union[str, "HcProducedEnum"]]) + +slots.hcr = Slot(uri=MIXS['0000988'], name="hcr", curie=MIXS.curie('0000988'), + model_uri=NMDC_SUB_SCHEMA.hcr, domain=None, range=Optional[Union[str, "HcrEnum"]]) + +slots.hcr_fw_salinity = Slot(uri=MIXS['0000406'], name="hcr_fw_salinity", curie=MIXS.curie('0000406'), + model_uri=NMDC_SUB_SCHEMA.hcr_fw_salinity, domain=None, range=Optional[str]) + +slots.hcr_geol_age = Slot(uri=MIXS['0000993'], name="hcr_geol_age", curie=MIXS.curie('0000993'), + model_uri=NMDC_SUB_SCHEMA.hcr_geol_age, domain=None, range=Optional[Union[str, "HcrGeolAgeEnum"]]) + +slots.hcr_pressure = Slot(uri=MIXS['0000395'], name="hcr_pressure", curie=MIXS.curie('0000395'), + model_uri=NMDC_SUB_SCHEMA.hcr_pressure, domain=None, range=Optional[str]) + +slots.hcr_temp = Slot(uri=MIXS['0000393'], name="hcr_temp", curie=MIXS.curie('0000393'), + model_uri=NMDC_SUB_SCHEMA.hcr_temp, domain=None, range=Optional[str]) + +slots.heat_cool_type = Slot(uri=MIXS['0000766'], name="heat_cool_type", curie=MIXS.curie('0000766'), + model_uri=NMDC_SUB_SCHEMA.heat_cool_type, domain=None, range=Optional[Union[Union[str, "HeatCoolTypeEnum"], List[Union[str, "HeatCoolTypeEnum"]]]]) + +slots.heat_deliv_loc = Slot(uri=MIXS['0000810'], name="heat_deliv_loc", curie=MIXS.curie('0000810'), + model_uri=NMDC_SUB_SCHEMA.heat_deliv_loc, domain=None, range=Optional[Union[str, "HeatDelivLocEnum"]]) + +slots.heat_sys_deliv_meth = Slot(uri=MIXS['0000812'], name="heat_sys_deliv_meth", curie=MIXS.curie('0000812'), + model_uri=NMDC_SUB_SCHEMA.heat_sys_deliv_meth, domain=None, range=Optional[str]) + +slots.heat_system_id = Slot(uri=MIXS['0000833'], name="heat_system_id", curie=MIXS.curie('0000833'), + model_uri=NMDC_SUB_SCHEMA.heat_system_id, domain=None, range=Optional[str]) + +slots.heavy_metals = Slot(uri=MIXS['0000652'], name="heavy_metals", curie=MIXS.curie('0000652'), + model_uri=NMDC_SUB_SCHEMA.heavy_metals, domain=None, range=Optional[str]) + +slots.heavy_metals_meth = Slot(uri=MIXS['0000343'], name="heavy_metals_meth", curie=MIXS.curie('0000343'), + model_uri=NMDC_SUB_SCHEMA.heavy_metals_meth, domain=None, range=Optional[str]) + +slots.height_carper_fiber = Slot(uri=MIXS['0000167'], name="height_carper_fiber", curie=MIXS.curie('0000167'), + model_uri=NMDC_SUB_SCHEMA.height_carper_fiber, domain=None, range=Optional[str]) + +slots.herbicide_regm = Slot(uri=MIXS['0000561'], name="herbicide_regm", curie=MIXS.curie('0000561'), + model_uri=NMDC_SUB_SCHEMA.herbicide_regm, domain=None, range=Optional[str]) + +slots.horizon_meth = Slot(uri=MIXS['0000321'], name="horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.horizon_meth, domain=None, range=Optional[str]) + +slots.host_age = Slot(uri=MIXS['0000255'], name="host_age", curie=MIXS.curie('0000255'), + model_uri=NMDC_SUB_SCHEMA.host_age, domain=None, range=Optional[str]) + +slots.host_body_habitat = Slot(uri=MIXS['0000866'], name="host_body_habitat", curie=MIXS.curie('0000866'), + model_uri=NMDC_SUB_SCHEMA.host_body_habitat, domain=None, range=Optional[str]) + +slots.host_body_product = Slot(uri=MIXS['0000888'], name="host_body_product", curie=MIXS.curie('0000888'), + model_uri=NMDC_SUB_SCHEMA.host_body_product, domain=None, range=Optional[str]) + +slots.host_body_site = Slot(uri=MIXS['0000867'], name="host_body_site", curie=MIXS.curie('0000867'), + model_uri=NMDC_SUB_SCHEMA.host_body_site, domain=None, range=Optional[str]) + +slots.host_body_temp = Slot(uri=MIXS['0000274'], name="host_body_temp", curie=MIXS.curie('0000274'), + model_uri=NMDC_SUB_SCHEMA.host_body_temp, domain=None, range=Optional[str]) + +slots.host_color = Slot(uri=MIXS['0000260'], name="host_color", curie=MIXS.curie('0000260'), + model_uri=NMDC_SUB_SCHEMA.host_color, domain=None, range=Optional[str]) + +slots.host_common_name = Slot(uri=MIXS['0000248'], name="host_common_name", curie=MIXS.curie('0000248'), + model_uri=NMDC_SUB_SCHEMA.host_common_name, domain=None, range=Optional[str]) + +slots.host_diet = Slot(uri=MIXS['0000869'], name="host_diet", curie=MIXS.curie('0000869'), + model_uri=NMDC_SUB_SCHEMA.host_diet, domain=None, range=Optional[str]) + +slots.host_dry_mass = Slot(uri=MIXS['0000257'], name="host_dry_mass", curie=MIXS.curie('0000257'), + model_uri=NMDC_SUB_SCHEMA.host_dry_mass, domain=None, range=Optional[str]) + +slots.host_family_relation = Slot(uri=MIXS['0000872'], name="host_family_relation", curie=MIXS.curie('0000872'), + model_uri=NMDC_SUB_SCHEMA.host_family_relation, domain=None, range=Optional[str]) + +slots.host_genotype = Slot(uri=MIXS['0000365'], name="host_genotype", curie=MIXS.curie('0000365'), + model_uri=NMDC_SUB_SCHEMA.host_genotype, domain=None, range=Optional[str]) + +slots.host_growth_cond = Slot(uri=MIXS['0000871'], name="host_growth_cond", curie=MIXS.curie('0000871'), + model_uri=NMDC_SUB_SCHEMA.host_growth_cond, domain=None, range=Optional[str]) + +slots.host_height = Slot(uri=MIXS['0000264'], name="host_height", curie=MIXS.curie('0000264'), + model_uri=NMDC_SUB_SCHEMA.host_height, domain=None, range=Optional[str]) + +slots.host_last_meal = Slot(uri=MIXS['0000870'], name="host_last_meal", curie=MIXS.curie('0000870'), + model_uri=NMDC_SUB_SCHEMA.host_last_meal, domain=None, range=Optional[str]) + +slots.host_length = Slot(uri=MIXS['0000256'], name="host_length", curie=MIXS.curie('0000256'), + model_uri=NMDC_SUB_SCHEMA.host_length, domain=None, range=Optional[str]) + +slots.host_life_stage = Slot(uri=MIXS['0000251'], name="host_life_stage", curie=MIXS.curie('0000251'), + model_uri=NMDC_SUB_SCHEMA.host_life_stage, domain=None, range=Optional[str]) + +slots.host_phenotype = Slot(uri=MIXS['0000874'], name="host_phenotype", curie=MIXS.curie('0000874'), + model_uri=NMDC_SUB_SCHEMA.host_phenotype, domain=None, range=Optional[str]) + +slots.host_sex = Slot(uri=MIXS['0000811'], name="host_sex", curie=MIXS.curie('0000811'), + model_uri=NMDC_SUB_SCHEMA.host_sex, domain=None, range=Optional[Union[str, "HostSexEnum"]]) + +slots.host_shape = Slot(uri=MIXS['0000261'], name="host_shape", curie=MIXS.curie('0000261'), + model_uri=NMDC_SUB_SCHEMA.host_shape, domain=None, range=Optional[str]) + +slots.host_subject_id = Slot(uri=MIXS['0000861'], name="host_subject_id", curie=MIXS.curie('0000861'), + model_uri=NMDC_SUB_SCHEMA.host_subject_id, domain=None, range=Optional[str]) + +slots.host_subspecf_genlin = Slot(uri=MIXS['0001318'], name="host_subspecf_genlin", curie=MIXS.curie('0001318'), + model_uri=NMDC_SUB_SCHEMA.host_subspecf_genlin, domain=None, range=Optional[str]) + +slots.host_substrate = Slot(uri=MIXS['0000252'], name="host_substrate", curie=MIXS.curie('0000252'), + model_uri=NMDC_SUB_SCHEMA.host_substrate, domain=None, range=Optional[str]) + +slots.host_symbiont = Slot(uri=MIXS['0001298'], name="host_symbiont", curie=MIXS.curie('0001298'), + model_uri=NMDC_SUB_SCHEMA.host_symbiont, domain=None, range=Optional[str]) + +slots.host_taxid = Slot(uri=MIXS['0000250'], name="host_taxid", curie=MIXS.curie('0000250'), + model_uri=NMDC_SUB_SCHEMA.host_taxid, domain=None, range=Optional[str]) + +slots.host_tot_mass = Slot(uri=MIXS['0000263'], name="host_tot_mass", curie=MIXS.curie('0000263'), + model_uri=NMDC_SUB_SCHEMA.host_tot_mass, domain=None, range=Optional[str]) + +slots.host_wet_mass = Slot(uri=MIXS['0000567'], name="host_wet_mass", curie=MIXS.curie('0000567'), + model_uri=NMDC_SUB_SCHEMA.host_wet_mass, domain=None, range=Optional[str]) + +slots.humidity = Slot(uri=MIXS['0000100'], name="humidity", curie=MIXS.curie('0000100'), + model_uri=NMDC_SUB_SCHEMA.humidity, domain=None, range=Optional[str]) + +slots.humidity_regm = Slot(uri=MIXS['0000568'], name="humidity_regm", curie=MIXS.curie('0000568'), + model_uri=NMDC_SUB_SCHEMA.humidity_regm, domain=None, range=Optional[str]) + +slots.indoor_space = Slot(uri=MIXS['0000763'], name="indoor_space", curie=MIXS.curie('0000763'), + model_uri=NMDC_SUB_SCHEMA.indoor_space, domain=None, range=Optional[Union[str, "IndoorSpaceEnum"]]) + +slots.indoor_surf = Slot(uri=MIXS['0000764'], name="indoor_surf", curie=MIXS.curie('0000764'), + model_uri=NMDC_SUB_SCHEMA.indoor_surf, domain=None, range=Optional[Union[str, "IndoorSurfEnum"]]) + +slots.indust_eff_percent = Slot(uri=MIXS['0000662'], name="indust_eff_percent", curie=MIXS.curie('0000662'), + model_uri=NMDC_SUB_SCHEMA.indust_eff_percent, domain=None, range=Optional[str]) + +slots.inorg_particles = Slot(uri=MIXS['0000664'], name="inorg_particles", curie=MIXS.curie('0000664'), + model_uri=NMDC_SUB_SCHEMA.inorg_particles, domain=None, range=Optional[str]) + +slots.inside_lux = Slot(uri=MIXS['0000168'], name="inside_lux", curie=MIXS.curie('0000168'), + model_uri=NMDC_SUB_SCHEMA.inside_lux, domain=None, range=Optional[str]) + +slots.int_wall_cond = Slot(uri=MIXS['0000813'], name="int_wall_cond", curie=MIXS.curie('0000813'), + model_uri=NMDC_SUB_SCHEMA.int_wall_cond, domain=None, range=Optional[Union[str, "IntWallCondEnum"]]) + +slots.isotope_exposure = Slot(uri=NMDC_SUB_SCHEMA.isotope_exposure, name="isotope_exposure", curie=NMDC_SUB_SCHEMA.curie('isotope_exposure'), + model_uri=NMDC_SUB_SCHEMA.isotope_exposure, domain=None, range=Optional[str]) + +slots.iw_bt_date_well = Slot(uri=MIXS['0001010'], name="iw_bt_date_well", curie=MIXS.curie('0001010'), + model_uri=NMDC_SUB_SCHEMA.iw_bt_date_well, domain=None, range=Optional[str]) + +slots.iwf = Slot(uri=MIXS['0000455'], name="iwf", curie=MIXS.curie('0000455'), + model_uri=NMDC_SUB_SCHEMA.iwf, domain=None, range=Optional[str]) + +slots.last_clean = Slot(uri=MIXS['0000814'], name="last_clean", curie=MIXS.curie('0000814'), + model_uri=NMDC_SUB_SCHEMA.last_clean, domain=None, range=Optional[str]) + +slots.lat_lon = Slot(uri=MIXS['0000009'], name="lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.lat_lon, domain=None, range=Optional[str]) + +slots.lbc_thirty = Slot(uri=NMDC_SUB_SCHEMA.lbc_thirty, name="lbc_thirty", curie=NMDC_SUB_SCHEMA.curie('lbc_thirty'), + model_uri=NMDC_SUB_SCHEMA.lbc_thirty, domain=None, range=Optional[str]) + +slots.lbceq = Slot(uri=NMDC_SUB_SCHEMA.lbceq, name="lbceq", curie=NMDC_SUB_SCHEMA.curie('lbceq'), + model_uri=NMDC_SUB_SCHEMA.lbceq, domain=None, range=Optional[str]) + +slots.light_intensity = Slot(uri=MIXS['0000706'], name="light_intensity", curie=MIXS.curie('0000706'), + model_uri=NMDC_SUB_SCHEMA.light_intensity, domain=None, range=Optional[str]) + +slots.light_regm = Slot(uri=MIXS['0000569'], name="light_regm", curie=MIXS.curie('0000569'), + model_uri=NMDC_SUB_SCHEMA.light_regm, domain=None, range=Optional[str]) + +slots.light_type = Slot(uri=MIXS['0000769'], name="light_type", curie=MIXS.curie('0000769'), + model_uri=NMDC_SUB_SCHEMA.light_type, domain=None, range=Optional[Union[Union[str, "LightTypeEnum"], List[Union[str, "LightTypeEnum"]]]]) + +slots.link_class_info = Slot(uri=MIXS['0000329'], name="link_class_info", curie=MIXS.curie('0000329'), + model_uri=NMDC_SUB_SCHEMA.link_class_info, domain=None, range=Optional[str]) + +slots.link_climate_info = Slot(uri=MIXS['0000328'], name="link_climate_info", curie=MIXS.curie('0000328'), + model_uri=NMDC_SUB_SCHEMA.link_climate_info, domain=None, range=Optional[str]) + +slots.lithology = Slot(uri=MIXS['0000990'], name="lithology", curie=MIXS.curie('0000990'), + model_uri=NMDC_SUB_SCHEMA.lithology, domain=None, range=Optional[Union[str, "LithologyEnum"]]) + +slots.local_class = Slot(uri=MIXS['0000330'], name="local_class", curie=MIXS.curie('0000330'), + model_uri=NMDC_SUB_SCHEMA.local_class, domain=None, range=Optional[str]) + +slots.local_class_meth = Slot(uri=MIXS['0000331'], name="local_class_meth", curie=MIXS.curie('0000331'), + model_uri=NMDC_SUB_SCHEMA.local_class_meth, domain=None, range=Optional[str]) + +slots.magnesium = Slot(uri=MIXS['0000431'], name="magnesium", curie=MIXS.curie('0000431'), + model_uri=NMDC_SUB_SCHEMA.magnesium, domain=None, range=Optional[str]) + +slots.manganese = Slot(uri=NMDC_SUB_SCHEMA.manganese, name="manganese", curie=NMDC_SUB_SCHEMA.curie('manganese'), + model_uri=NMDC_SUB_SCHEMA.manganese, domain=None, range=Optional[str]) + +slots.max_occup = Slot(uri=MIXS['0000229'], name="max_occup", curie=MIXS.curie('0000229'), + model_uri=NMDC_SUB_SCHEMA.max_occup, domain=None, range=Optional[str]) + +slots.mean_frict_vel = Slot(uri=MIXS['0000498'], name="mean_frict_vel", curie=MIXS.curie('0000498'), + model_uri=NMDC_SUB_SCHEMA.mean_frict_vel, domain=None, range=Optional[str]) + +slots.mean_peak_frict_vel = Slot(uri=MIXS['0000502'], name="mean_peak_frict_vel", curie=MIXS.curie('0000502'), + model_uri=NMDC_SUB_SCHEMA.mean_peak_frict_vel, domain=None, range=Optional[str]) + +slots.mech_struc = Slot(uri=MIXS['0000815'], name="mech_struc", curie=MIXS.curie('0000815'), + model_uri=NMDC_SUB_SCHEMA.mech_struc, domain=None, range=Optional[Union[str, "MechStrucEnum"]]) + +slots.mechanical_damage = Slot(uri=MIXS['0001052'], name="mechanical_damage", curie=MIXS.curie('0001052'), + model_uri=NMDC_SUB_SCHEMA.mechanical_damage, domain=None, range=Optional[str]) + +slots.methane = Slot(uri=MIXS['0000101'], name="methane", curie=MIXS.curie('0000101'), + model_uri=NMDC_SUB_SCHEMA.methane, domain=None, range=Optional[str]) + +slots.micro_biomass_c_meth = Slot(uri=NMDC_SUB_SCHEMA.micro_biomass_c_meth, name="micro_biomass_c_meth", curie=NMDC_SUB_SCHEMA.curie('micro_biomass_c_meth'), + model_uri=NMDC_SUB_SCHEMA.micro_biomass_c_meth, domain=None, range=Optional[str]) + +slots.micro_biomass_meth = Slot(uri=MIXS['0000339'], name="micro_biomass_meth", curie=MIXS.curie('0000339'), + model_uri=NMDC_SUB_SCHEMA.micro_biomass_meth, domain=None, range=Optional[str]) + +slots.micro_biomass_n_meth = Slot(uri=NMDC_SUB_SCHEMA.micro_biomass_n_meth, name="micro_biomass_n_meth", curie=NMDC_SUB_SCHEMA.curie('micro_biomass_n_meth'), + model_uri=NMDC_SUB_SCHEMA.micro_biomass_n_meth, domain=None, range=Optional[str]) + +slots.microbial_biomass = Slot(uri=MIXS['0000650'], name="microbial_biomass", curie=MIXS.curie('0000650'), + model_uri=NMDC_SUB_SCHEMA.microbial_biomass, domain=None, range=Optional[str]) + +slots.microbial_biomass_c = Slot(uri=NMDC_SUB_SCHEMA.microbial_biomass_c, name="microbial_biomass_c", curie=NMDC_SUB_SCHEMA.curie('microbial_biomass_c'), + model_uri=NMDC_SUB_SCHEMA.microbial_biomass_c, domain=None, range=Optional[str]) + +slots.microbial_biomass_n = Slot(uri=NMDC_SUB_SCHEMA.microbial_biomass_n, name="microbial_biomass_n", curie=NMDC_SUB_SCHEMA.curie('microbial_biomass_n'), + model_uri=NMDC_SUB_SCHEMA.microbial_biomass_n, domain=None, range=Optional[str]) + +slots.mineral_nutr_regm = Slot(uri=MIXS['0000570'], name="mineral_nutr_regm", curie=MIXS.curie('0000570'), + model_uri=NMDC_SUB_SCHEMA.mineral_nutr_regm, domain=None, range=Optional[str]) + +slots.misc_param = Slot(uri=MIXS['0000752'], name="misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.misc_param, domain=None, range=Optional[str]) + +slots.n_alkanes = Slot(uri=MIXS['0000503'], name="n_alkanes", curie=MIXS.curie('0000503'), + model_uri=NMDC_SUB_SCHEMA.n_alkanes, domain=None, range=Optional[str]) + +slots.nitrate = Slot(uri=MIXS['0000425'], name="nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.nitrate, domain=None, range=Optional[str]) + +slots.nitrate_nitrogen = Slot(uri=NMDC_SUB_SCHEMA.nitrate_nitrogen, name="nitrate_nitrogen", curie=NMDC_SUB_SCHEMA.curie('nitrate_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.nitrate_nitrogen, domain=None, range=Optional[str]) + +slots.nitrite = Slot(uri=MIXS['0000426'], name="nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.nitrite, domain=None, range=Optional[str]) + +slots.nitrite_nitrogen = Slot(uri=NMDC_SUB_SCHEMA.nitrite_nitrogen, name="nitrite_nitrogen", curie=NMDC_SUB_SCHEMA.curie('nitrite_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.nitrite_nitrogen, domain=None, range=Optional[str]) + +slots.nitro = Slot(uri=MIXS['0000504'], name="nitro", curie=MIXS.curie('0000504'), + model_uri=NMDC_SUB_SCHEMA.nitro, domain=None, range=Optional[str]) + +slots.non_microb_biomass = Slot(uri=NMDC_SUB_SCHEMA.non_microb_biomass, name="non_microb_biomass", curie=NMDC_SUB_SCHEMA.curie('non_microb_biomass'), + model_uri=NMDC_SUB_SCHEMA.non_microb_biomass, domain=None, range=Optional[str]) + +slots.non_microb_biomass_method = Slot(uri=NMDC_SUB_SCHEMA.non_microb_biomass_method, name="non_microb_biomass_method", curie=NMDC_SUB_SCHEMA.curie('non_microb_biomass_method'), + model_uri=NMDC_SUB_SCHEMA.non_microb_biomass_method, domain=None, range=Optional[str]) + +slots.non_min_nutr_regm = Slot(uri=MIXS['0000571'], name="non_min_nutr_regm", curie=MIXS.curie('0000571'), + model_uri=NMDC_SUB_SCHEMA.non_min_nutr_regm, domain=None, range=Optional[str]) + +slots.number_pets = Slot(uri=MIXS['0000231'], name="number_pets", curie=MIXS.curie('0000231'), + model_uri=NMDC_SUB_SCHEMA.number_pets, domain=None, range=Optional[str]) + +slots.number_plants = Slot(uri=MIXS['0000230'], name="number_plants", curie=MIXS.curie('0000230'), + model_uri=NMDC_SUB_SCHEMA.number_plants, domain=None, range=Optional[str]) + +slots.number_resident = Slot(uri=MIXS['0000232'], name="number_resident", curie=MIXS.curie('0000232'), + model_uri=NMDC_SUB_SCHEMA.number_resident, domain=None, range=Optional[str]) + +slots.occup_density_samp = Slot(uri=MIXS['0000217'], name="occup_density_samp", curie=MIXS.curie('0000217'), + model_uri=NMDC_SUB_SCHEMA.occup_density_samp, domain=None, range=Optional[str]) + +slots.occup_document = Slot(uri=MIXS['0000816'], name="occup_document", curie=MIXS.curie('0000816'), + model_uri=NMDC_SUB_SCHEMA.occup_document, domain=None, range=Optional[Union[str, "OccupDocumentEnum"]]) + +slots.occup_samp = Slot(uri=MIXS['0000772'], name="occup_samp", curie=MIXS.curie('0000772'), + model_uri=NMDC_SUB_SCHEMA.occup_samp, domain=None, range=Optional[str]) + +slots.org_carb = Slot(uri=MIXS['0000508'], name="org_carb", curie=MIXS.curie('0000508'), + model_uri=NMDC_SUB_SCHEMA.org_carb, domain=None, range=Optional[str]) + +slots.org_count_qpcr_info = Slot(uri=MIXS['0000099'], name="org_count_qpcr_info", curie=MIXS.curie('0000099'), + model_uri=NMDC_SUB_SCHEMA.org_count_qpcr_info, domain=None, range=Optional[str]) + +slots.org_matter = Slot(uri=MIXS['0000204'], name="org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.org_matter, domain=None, range=Optional[str]) + +slots.org_nitro = Slot(uri=MIXS['0000205'], name="org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.org_nitro, domain=None, range=Optional[str]) + +slots.org_nitro_method = Slot(uri=NMDC_SUB_SCHEMA.org_nitro_method, name="org_nitro_method", curie=NMDC_SUB_SCHEMA.curie('org_nitro_method'), + model_uri=NMDC_SUB_SCHEMA.org_nitro_method, domain=None, range=Optional[str]) + +slots.org_particles = Slot(uri=MIXS['0000665'], name="org_particles", curie=MIXS.curie('0000665'), + model_uri=NMDC_SUB_SCHEMA.org_particles, domain=None, range=Optional[str]) + +slots.organism_count = Slot(uri=MIXS['0000103'], name="organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.organism_count, domain=None, range=Optional[str]) + +slots.other_treatment = Slot(uri=NMDC_SUB_SCHEMA.other_treatment, name="other_treatment", curie=NMDC_SUB_SCHEMA.curie('other_treatment'), + model_uri=NMDC_SUB_SCHEMA.other_treatment, domain=None, range=Optional[str]) + +slots.owc_tvdss = Slot(uri=MIXS['0000405'], name="owc_tvdss", curie=MIXS.curie('0000405'), + model_uri=NMDC_SUB_SCHEMA.owc_tvdss, domain=None, range=Optional[str]) + +slots.oxy_stat_samp = Slot(uri=MIXS['0000753'], name="oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.oxy_stat_samp, domain=None, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.oxygen = Slot(uri=MIXS['0000104'], name="oxygen", curie=MIXS.curie('0000104'), + model_uri=NMDC_SUB_SCHEMA.oxygen, domain=None, range=Optional[str]) + +slots.part_org_carb = Slot(uri=MIXS['0000515'], name="part_org_carb", curie=MIXS.curie('0000515'), + model_uri=NMDC_SUB_SCHEMA.part_org_carb, domain=None, range=Optional[str]) + +slots.part_org_nitro = Slot(uri=MIXS['0000719'], name="part_org_nitro", curie=MIXS.curie('0000719'), + model_uri=NMDC_SUB_SCHEMA.part_org_nitro, domain=None, range=Optional[str]) + +slots.particle_class = Slot(uri=MIXS['0000206'], name="particle_class", curie=MIXS.curie('0000206'), + model_uri=NMDC_SUB_SCHEMA.particle_class, domain=None, range=Optional[str]) + +slots.permeability = Slot(uri=MIXS['0000404'], name="permeability", curie=MIXS.curie('0000404'), + model_uri=NMDC_SUB_SCHEMA.permeability, domain=None, range=Optional[str]) + +slots.perturbation = Slot(uri=MIXS['0000754'], name="perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.perturbation, domain=None, range=Optional[str]) + +slots.pesticide_regm = Slot(uri=MIXS['0000573'], name="pesticide_regm", curie=MIXS.curie('0000573'), + model_uri=NMDC_SUB_SCHEMA.pesticide_regm, domain=None, range=Optional[str]) + +slots.petroleum_hydrocarb = Slot(uri=MIXS['0000516'], name="petroleum_hydrocarb", curie=MIXS.curie('0000516'), + model_uri=NMDC_SUB_SCHEMA.petroleum_hydrocarb, domain=None, range=Optional[str]) + +slots.ph = Slot(uri=MIXS['0001001'], name="ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.ph, domain=None, range=Optional[float]) + +slots.ph_meth = Slot(uri=MIXS['0001106'], name="ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.ph_meth, domain=None, range=Optional[str]) + +slots.ph_regm = Slot(uri=MIXS['0001056'], name="ph_regm", curie=MIXS.curie('0001056'), + model_uri=NMDC_SUB_SCHEMA.ph_regm, domain=None, range=Optional[str]) + +slots.phaeopigments = Slot(uri=MIXS['0000180'], name="phaeopigments", curie=MIXS.curie('0000180'), + model_uri=NMDC_SUB_SCHEMA.phaeopigments, domain=None, range=Optional[str]) + +slots.phosphate = Slot(uri=MIXS['0000505'], name="phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.phosphate, domain=None, range=Optional[str]) + +slots.phosplipid_fatt_acid = Slot(uri=MIXS['0000181'], name="phosplipid_fatt_acid", curie=MIXS.curie('0000181'), + model_uri=NMDC_SUB_SCHEMA.phosplipid_fatt_acid, domain=None, range=Optional[str]) + +slots.photon_flux = Slot(uri=MIXS['0000725'], name="photon_flux", curie=MIXS.curie('0000725'), + model_uri=NMDC_SUB_SCHEMA.photon_flux, domain=None, range=Optional[str]) + +slots.plant_growth_med = Slot(uri=MIXS['0001057'], name="plant_growth_med", curie=MIXS.curie('0001057'), + model_uri=NMDC_SUB_SCHEMA.plant_growth_med, domain=None, range=Optional[str]) + +slots.plant_product = Slot(uri=MIXS['0001058'], name="plant_product", curie=MIXS.curie('0001058'), + model_uri=NMDC_SUB_SCHEMA.plant_product, domain=None, range=Optional[str]) + +slots.plant_sex = Slot(uri=MIXS['0001059'], name="plant_sex", curie=MIXS.curie('0001059'), + model_uri=NMDC_SUB_SCHEMA.plant_sex, domain=None, range=Optional[Union[str, "PlantSexEnum"]]) + +slots.plant_struc = Slot(uri=MIXS['0001060'], name="plant_struc", curie=MIXS.curie('0001060'), + model_uri=NMDC_SUB_SCHEMA.plant_struc, domain=None, range=Optional[str]) + +slots.pollutants = Slot(uri=MIXS['0000107'], name="pollutants", curie=MIXS.curie('0000107'), + model_uri=NMDC_SUB_SCHEMA.pollutants, domain=None, range=Optional[str]) + +slots.porosity = Slot(uri=MIXS['0000211'], name="porosity", curie=MIXS.curie('0000211'), + model_uri=NMDC_SUB_SCHEMA.porosity, domain=None, range=Optional[str]) + +slots.potassium = Slot(uri=MIXS['0000430'], name="potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.potassium, domain=None, range=Optional[str]) + +slots.pour_point = Slot(uri=MIXS['0000127'], name="pour_point", curie=MIXS.curie('0000127'), + model_uri=NMDC_SUB_SCHEMA.pour_point, domain=None, range=Optional[str]) + +slots.pre_treatment = Slot(uri=MIXS['0000348'], name="pre_treatment", curie=MIXS.curie('0000348'), + model_uri=NMDC_SUB_SCHEMA.pre_treatment, domain=None, range=Optional[str]) + +slots.pres_animal_insect = Slot(uri=MIXS['0000819'], name="pres_animal_insect", curie=MIXS.curie('0000819'), + model_uri=NMDC_SUB_SCHEMA.pres_animal_insect, domain=None, range=Optional[str], + pattern=re.compile(r'^(cat|dog|rodent|snake|other);\d+$')) + +slots.pressure = Slot(uri=MIXS['0000412'], name="pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.pressure, domain=None, range=Optional[str]) + +slots.prev_land_use_meth = Slot(uri=MIXS['0000316'], name="prev_land_use_meth", curie=MIXS.curie('0000316'), + model_uri=NMDC_SUB_SCHEMA.prev_land_use_meth, domain=None, range=Optional[str]) + +slots.previous_land_use = Slot(uri=MIXS['0000315'], name="previous_land_use", curie=MIXS.curie('0000315'), + model_uri=NMDC_SUB_SCHEMA.previous_land_use, domain=None, range=Optional[str]) + +slots.primary_prod = Slot(uri=MIXS['0000728'], name="primary_prod", curie=MIXS.curie('0000728'), + model_uri=NMDC_SUB_SCHEMA.primary_prod, domain=None, range=Optional[str]) + +slots.primary_treatment = Slot(uri=MIXS['0000349'], name="primary_treatment", curie=MIXS.curie('0000349'), + model_uri=NMDC_SUB_SCHEMA.primary_treatment, domain=None, range=Optional[str]) + +slots.prod_rate = Slot(uri=MIXS['0000452'], name="prod_rate", curie=MIXS.curie('0000452'), + model_uri=NMDC_SUB_SCHEMA.prod_rate, domain=None, range=Optional[str]) + +slots.prod_start_date = Slot(uri=MIXS['0001008'], name="prod_start_date", curie=MIXS.curie('0001008'), + model_uri=NMDC_SUB_SCHEMA.prod_start_date, domain=None, range=Optional[str]) + +slots.profile_position = Slot(uri=MIXS['0001084'], name="profile_position", curie=MIXS.curie('0001084'), + model_uri=NMDC_SUB_SCHEMA.profile_position, domain=None, range=Optional[Union[str, "ProfilePositionEnum"]]) + +slots.project_id = Slot(uri=NMDC_SUB_SCHEMA.project_id, name="project_id", curie=NMDC_SUB_SCHEMA.curie('project_id'), + model_uri=NMDC_SUB_SCHEMA.project_id, domain=None, range=Optional[str]) + +slots.proposal_dna = Slot(uri=NMDC_SUB_SCHEMA.proposal_dna, name="proposal_dna", curie=NMDC_SUB_SCHEMA.curie('proposal_dna'), + model_uri=NMDC_SUB_SCHEMA.proposal_dna, domain=None, range=Optional[str]) + +slots.proposal_rna = Slot(uri=NMDC_SUB_SCHEMA.proposal_rna, name="proposal_rna", curie=NMDC_SUB_SCHEMA.curie('proposal_rna'), + model_uri=NMDC_SUB_SCHEMA.proposal_rna, domain=None, range=Optional[str]) + +slots.quad_pos = Slot(uri=MIXS['0000820'], name="quad_pos", curie=MIXS.curie('0000820'), + model_uri=NMDC_SUB_SCHEMA.quad_pos, domain=None, range=Optional[Union[str, "QuadPosEnum"]]) + +slots.radiation_regm = Slot(uri=MIXS['0000575'], name="radiation_regm", curie=MIXS.curie('0000575'), + model_uri=NMDC_SUB_SCHEMA.radiation_regm, domain=None, range=Optional[str]) + +slots.rainfall_regm = Slot(uri=MIXS['0000576'], name="rainfall_regm", curie=MIXS.curie('0000576'), + model_uri=NMDC_SUB_SCHEMA.rainfall_regm, domain=None, range=Optional[str]) + +slots.reactor_type = Slot(uri=MIXS['0000350'], name="reactor_type", curie=MIXS.curie('0000350'), + model_uri=NMDC_SUB_SCHEMA.reactor_type, domain=None, range=Optional[str]) + +slots.redox_potential = Slot(uri=MIXS['0000182'], name="redox_potential", curie=MIXS.curie('0000182'), + model_uri=NMDC_SUB_SCHEMA.redox_potential, domain=None, range=Optional[str]) + +slots.rel_air_humidity = Slot(uri=MIXS['0000121'], name="rel_air_humidity", curie=MIXS.curie('0000121'), + model_uri=NMDC_SUB_SCHEMA.rel_air_humidity, domain=None, range=Optional[str]) + +slots.rel_humidity_out = Slot(uri=MIXS['0000188'], name="rel_humidity_out", curie=MIXS.curie('0000188'), + model_uri=NMDC_SUB_SCHEMA.rel_humidity_out, domain=None, range=Optional[str]) + +slots.rel_samp_loc = Slot(uri=MIXS['0000821'], name="rel_samp_loc", curie=MIXS.curie('0000821'), + model_uri=NMDC_SUB_SCHEMA.rel_samp_loc, domain=None, range=Optional[Union[str, "RelSampLocEnum"]]) + +slots.replicate_number = Slot(uri=NMDC_SUB_SCHEMA.replicate_number, name="replicate_number", curie=NMDC_SUB_SCHEMA.curie('replicate_number'), + model_uri=NMDC_SUB_SCHEMA.replicate_number, domain=None, range=Optional[str]) + +slots.reservoir = Slot(uri=MIXS['0000303'], name="reservoir", curie=MIXS.curie('0000303'), + model_uri=NMDC_SUB_SCHEMA.reservoir, domain=None, range=Optional[str]) + +slots.resins_pc = Slot(uri=MIXS['0000134'], name="resins_pc", curie=MIXS.curie('0000134'), + model_uri=NMDC_SUB_SCHEMA.resins_pc, domain=None, range=Optional[str]) + +slots.rna_absorb1 = Slot(uri=NMDC_SUB_SCHEMA.rna_absorb1, name="rna_absorb1", curie=NMDC_SUB_SCHEMA.curie('rna_absorb1'), + model_uri=NMDC_SUB_SCHEMA.rna_absorb1, domain=None, range=Optional[float]) + +slots.rna_absorb2 = Slot(uri=NMDC_SUB_SCHEMA.rna_absorb2, name="rna_absorb2", curie=NMDC_SUB_SCHEMA.curie('rna_absorb2'), + model_uri=NMDC_SUB_SCHEMA.rna_absorb2, domain=None, range=Optional[float]) + +slots.rna_concentration = Slot(uri=NMDC_SUB_SCHEMA.rna_concentration, name="rna_concentration", curie=NMDC_SUB_SCHEMA.curie('rna_concentration'), + model_uri=NMDC_SUB_SCHEMA.rna_concentration, domain=None, range=Optional[float]) + +slots.rna_cont_type = Slot(uri=NMDC_SUB_SCHEMA.rna_cont_type, name="rna_cont_type", curie=NMDC_SUB_SCHEMA.curie('rna_cont_type'), + model_uri=NMDC_SUB_SCHEMA.rna_cont_type, domain=None, range=Optional[Union[str, "JgiContTypeEnum"]]) + +slots.rna_cont_well = Slot(uri=NMDC_SUB_SCHEMA.rna_cont_well, name="rna_cont_well", curie=NMDC_SUB_SCHEMA.curie('rna_cont_well'), + model_uri=NMDC_SUB_SCHEMA.rna_cont_well, domain=None, range=Optional[str], + pattern=re.compile(r'^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$')) + +slots.rna_container_id = Slot(uri=NMDC_SUB_SCHEMA.rna_container_id, name="rna_container_id", curie=NMDC_SUB_SCHEMA.curie('rna_container_id'), + model_uri=NMDC_SUB_SCHEMA.rna_container_id, domain=None, range=Optional[str]) + +slots.rna_isolate_meth = Slot(uri=NMDC_SUB_SCHEMA.rna_isolate_meth, name="rna_isolate_meth", curie=NMDC_SUB_SCHEMA.curie('rna_isolate_meth'), + model_uri=NMDC_SUB_SCHEMA.rna_isolate_meth, domain=None, range=Optional[str]) + +slots.rna_project_contact = Slot(uri=NMDC_SUB_SCHEMA.rna_project_contact, name="rna_project_contact", curie=NMDC_SUB_SCHEMA.curie('rna_project_contact'), + model_uri=NMDC_SUB_SCHEMA.rna_project_contact, domain=None, range=Optional[str]) + +slots.rna_samp_id = Slot(uri=NMDC_SUB_SCHEMA.rna_samp_id, name="rna_samp_id", curie=NMDC_SUB_SCHEMA.curie('rna_samp_id'), + model_uri=NMDC_SUB_SCHEMA.rna_samp_id, domain=None, range=Optional[str]) + +slots.rna_sample_format = Slot(uri=NMDC_SUB_SCHEMA.rna_sample_format, name="rna_sample_format", curie=NMDC_SUB_SCHEMA.curie('rna_sample_format'), + model_uri=NMDC_SUB_SCHEMA.rna_sample_format, domain=None, range=Optional[Union[str, "RnaSampleFormatEnum"]]) + +slots.rna_sample_name = Slot(uri=NMDC_SUB_SCHEMA.rna_sample_name, name="rna_sample_name", curie=NMDC_SUB_SCHEMA.curie('rna_sample_name'), + model_uri=NMDC_SUB_SCHEMA.rna_sample_name, domain=None, range=Optional[str]) + +slots.rna_seq_project = Slot(uri=NMDC_SUB_SCHEMA.rna_seq_project, name="rna_seq_project", curie=NMDC_SUB_SCHEMA.curie('rna_seq_project'), + model_uri=NMDC_SUB_SCHEMA.rna_seq_project, domain=None, range=Optional[str]) + +slots.rna_seq_project_name = Slot(uri=NMDC_SUB_SCHEMA.rna_seq_project_name, name="rna_seq_project_name", curie=NMDC_SUB_SCHEMA.curie('rna_seq_project_name'), + model_uri=NMDC_SUB_SCHEMA.rna_seq_project_name, domain=None, range=Optional[str]) + +slots.rna_seq_project_pi = Slot(uri=NMDC_SUB_SCHEMA.rna_seq_project_pi, name="rna_seq_project_pi", curie=NMDC_SUB_SCHEMA.curie('rna_seq_project_pi'), + model_uri=NMDC_SUB_SCHEMA.rna_seq_project_pi, domain=None, range=Optional[str]) + +slots.rna_volume = Slot(uri=NMDC_SUB_SCHEMA.rna_volume, name="rna_volume", curie=NMDC_SUB_SCHEMA.curie('rna_volume'), + model_uri=NMDC_SUB_SCHEMA.rna_volume, domain=None, range=Optional[float]) + +slots.room_air_exch_rate = Slot(uri=MIXS['0000169'], name="room_air_exch_rate", curie=MIXS.curie('0000169'), + model_uri=NMDC_SUB_SCHEMA.room_air_exch_rate, domain=None, range=Optional[str]) + +slots.room_architec_elem = Slot(uri=MIXS['0000233'], name="room_architec_elem", curie=MIXS.curie('0000233'), + model_uri=NMDC_SUB_SCHEMA.room_architec_elem, domain=None, range=Optional[str]) + +slots.room_condt = Slot(uri=MIXS['0000822'], name="room_condt", curie=MIXS.curie('0000822'), + model_uri=NMDC_SUB_SCHEMA.room_condt, domain=None, range=Optional[Union[str, "RoomCondtEnum"]]) + +slots.room_connected = Slot(uri=MIXS['0000826'], name="room_connected", curie=MIXS.curie('0000826'), + model_uri=NMDC_SUB_SCHEMA.room_connected, domain=None, range=Optional[Union[str, "RoomConnectedEnum"]]) + +slots.room_count = Slot(uri=MIXS['0000234'], name="room_count", curie=MIXS.curie('0000234'), + model_uri=NMDC_SUB_SCHEMA.room_count, domain=None, range=Optional[str]) + +slots.room_dim = Slot(uri=MIXS['0000192'], name="room_dim", curie=MIXS.curie('0000192'), + model_uri=NMDC_SUB_SCHEMA.room_dim, domain=None, range=Optional[str]) + +slots.room_door_dist = Slot(uri=MIXS['0000193'], name="room_door_dist", curie=MIXS.curie('0000193'), + model_uri=NMDC_SUB_SCHEMA.room_door_dist, domain=None, range=Optional[str]) + +slots.room_door_share = Slot(uri=MIXS['0000242'], name="room_door_share", curie=MIXS.curie('0000242'), + model_uri=NMDC_SUB_SCHEMA.room_door_share, domain=None, range=Optional[str]) + +slots.room_hallway = Slot(uri=MIXS['0000238'], name="room_hallway", curie=MIXS.curie('0000238'), + model_uri=NMDC_SUB_SCHEMA.room_hallway, domain=None, range=Optional[str]) + +slots.room_loc = Slot(uri=MIXS['0000823'], name="room_loc", curie=MIXS.curie('0000823'), + model_uri=NMDC_SUB_SCHEMA.room_loc, domain=None, range=Optional[Union[str, "RoomLocEnum"]]) + +slots.room_moist_dam_hist = Slot(uri=MIXS['0000235'], name="room_moist_dam_hist", curie=MIXS.curie('0000235'), + model_uri=NMDC_SUB_SCHEMA.room_moist_dam_hist, domain=None, range=Optional[int]) + +slots.room_net_area = Slot(uri=MIXS['0000194'], name="room_net_area", curie=MIXS.curie('0000194'), + model_uri=NMDC_SUB_SCHEMA.room_net_area, domain=None, range=Optional[str]) + +slots.room_occup = Slot(uri=MIXS['0000236'], name="room_occup", curie=MIXS.curie('0000236'), + model_uri=NMDC_SUB_SCHEMA.room_occup, domain=None, range=Optional[str]) + +slots.room_samp_pos = Slot(uri=MIXS['0000824'], name="room_samp_pos", curie=MIXS.curie('0000824'), + model_uri=NMDC_SUB_SCHEMA.room_samp_pos, domain=None, range=Optional[Union[str, "RoomSampPosEnum"]]) + +slots.room_type = Slot(uri=MIXS['0000825'], name="room_type", curie=MIXS.curie('0000825'), + model_uri=NMDC_SUB_SCHEMA.room_type, domain=None, range=Optional[Union[str, "RoomTypeEnum"]]) + +slots.room_vol = Slot(uri=MIXS['0000195'], name="room_vol", curie=MIXS.curie('0000195'), + model_uri=NMDC_SUB_SCHEMA.room_vol, domain=None, range=Optional[str]) + +slots.room_wall_share = Slot(uri=MIXS['0000243'], name="room_wall_share", curie=MIXS.curie('0000243'), + model_uri=NMDC_SUB_SCHEMA.room_wall_share, domain=None, range=Optional[str]) + +slots.room_window_count = Slot(uri=MIXS['0000237'], name="room_window_count", curie=MIXS.curie('0000237'), + model_uri=NMDC_SUB_SCHEMA.room_window_count, domain=None, range=Optional[int]) + +slots.root_cond = Slot(uri=MIXS['0001061'], name="root_cond", curie=MIXS.curie('0001061'), + model_uri=NMDC_SUB_SCHEMA.root_cond, domain=None, range=Optional[str]) + +slots.root_med_carbon = Slot(uri=MIXS['0000577'], name="root_med_carbon", curie=MIXS.curie('0000577'), + model_uri=NMDC_SUB_SCHEMA.root_med_carbon, domain=None, range=Optional[str]) + +slots.root_med_macronutr = Slot(uri=MIXS['0000578'], name="root_med_macronutr", curie=MIXS.curie('0000578'), + model_uri=NMDC_SUB_SCHEMA.root_med_macronutr, domain=None, range=Optional[str]) + +slots.root_med_micronutr = Slot(uri=MIXS['0000579'], name="root_med_micronutr", curie=MIXS.curie('0000579'), + model_uri=NMDC_SUB_SCHEMA.root_med_micronutr, domain=None, range=Optional[str]) + +slots.root_med_ph = Slot(uri=MIXS['0001062'], name="root_med_ph", curie=MIXS.curie('0001062'), + model_uri=NMDC_SUB_SCHEMA.root_med_ph, domain=None, range=Optional[str]) + +slots.root_med_regl = Slot(uri=MIXS['0000581'], name="root_med_regl", curie=MIXS.curie('0000581'), + model_uri=NMDC_SUB_SCHEMA.root_med_regl, domain=None, range=Optional[str]) + +slots.root_med_solid = Slot(uri=MIXS['0001063'], name="root_med_solid", curie=MIXS.curie('0001063'), + model_uri=NMDC_SUB_SCHEMA.root_med_solid, domain=None, range=Optional[str]) + +slots.root_med_suppl = Slot(uri=MIXS['0000580'], name="root_med_suppl", curie=MIXS.curie('0000580'), + model_uri=NMDC_SUB_SCHEMA.root_med_suppl, domain=None, range=Optional[str]) + +slots.salinity = Slot(uri=MIXS['0000183'], name="salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.salinity, domain=None, range=Optional[str]) + +slots.salinity_meth = Slot(uri=MIXS['0000341'], name="salinity_meth", curie=MIXS.curie('0000341'), + model_uri=NMDC_SUB_SCHEMA.salinity_meth, domain=None, range=Optional[str]) + +slots.salt_regm = Slot(uri=MIXS['0000582'], name="salt_regm", curie=MIXS.curie('0000582'), + model_uri=NMDC_SUB_SCHEMA.salt_regm, domain=None, range=Optional[str]) + +slots.samp_capt_status = Slot(uri=MIXS['0000860'], name="samp_capt_status", curie=MIXS.curie('0000860'), + model_uri=NMDC_SUB_SCHEMA.samp_capt_status, domain=None, range=Optional[Union[str, "SampCaptStatusEnum"]]) + +slots.samp_collec_device = Slot(uri=MIXS['0000002'], name="samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.samp_collec_device, domain=None, range=Optional[str]) + +slots.samp_collec_method = Slot(uri=MIXS['0001225'], name="samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.samp_collec_method, domain=None, range=Optional[str]) + +slots.samp_collect_point = Slot(uri=MIXS['0001015'], name="samp_collect_point", curie=MIXS.curie('0001015'), + model_uri=NMDC_SUB_SCHEMA.samp_collect_point, domain=None, range=Optional[Union[str, "SampCollectPointEnum"]]) + +slots.samp_dis_stage = Slot(uri=MIXS['0000249'], name="samp_dis_stage", curie=MIXS.curie('0000249'), + model_uri=NMDC_SUB_SCHEMA.samp_dis_stage, domain=None, range=Optional[Union[str, "SampDisStageEnum"]]) + +slots.samp_floor = Slot(uri=MIXS['0000828'], name="samp_floor", curie=MIXS.curie('0000828'), + model_uri=NMDC_SUB_SCHEMA.samp_floor, domain=None, range=Optional[Union[str, "SampFloorEnum"]]) + +slots.samp_loc_corr_rate = Slot(uri=MIXS['0000136'], name="samp_loc_corr_rate", curie=MIXS.curie('0000136'), + model_uri=NMDC_SUB_SCHEMA.samp_loc_corr_rate, domain=None, range=Optional[str]) + +slots.samp_mat_process = Slot(uri=MIXS['0000016'], name="samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.samp_mat_process, domain=None, range=Optional[str]) + +slots.samp_md = Slot(uri=MIXS['0000413'], name="samp_md", curie=MIXS.curie('0000413'), + model_uri=NMDC_SUB_SCHEMA.samp_md, domain=None, range=Optional[str]) + +slots.samp_name = Slot(uri=MIXS['0001107'], name="samp_name", curie=MIXS.curie('0001107'), + model_uri=NMDC_SUB_SCHEMA.samp_name, domain=None, range=Optional[str]) + +slots.samp_preserv = Slot(uri=MIXS['0000463'], name="samp_preserv", curie=MIXS.curie('0000463'), + model_uri=NMDC_SUB_SCHEMA.samp_preserv, domain=None, range=Optional[str]) + +slots.samp_room_id = Slot(uri=MIXS['0000244'], name="samp_room_id", curie=MIXS.curie('0000244'), + model_uri=NMDC_SUB_SCHEMA.samp_room_id, domain=None, range=Optional[str]) + +slots.samp_size = Slot(uri=MIXS['0000001'], name="samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.samp_size, domain=None, range=Optional[str]) + +slots.samp_sort_meth = Slot(uri=MIXS['0000216'], name="samp_sort_meth", curie=MIXS.curie('0000216'), + model_uri=NMDC_SUB_SCHEMA.samp_sort_meth, domain=None, range=Optional[str]) + +slots.samp_store_dur = Slot(uri=MIXS['0000116'], name="samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.samp_store_dur, domain=None, range=Optional[str]) + +slots.samp_store_loc = Slot(uri=MIXS['0000755'], name="samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.samp_store_loc, domain=None, range=Optional[str]) + +slots.samp_store_temp = Slot(uri=MIXS['0000110'], name="samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.samp_store_temp, domain=None, range=Optional[str]) + +slots.samp_subtype = Slot(uri=MIXS['0000999'], name="samp_subtype", curie=MIXS.curie('0000999'), + model_uri=NMDC_SUB_SCHEMA.samp_subtype, domain=None, range=Optional[Union[str, "SampSubtypeEnum"]]) + +slots.samp_time_out = Slot(uri=MIXS['0000196'], name="samp_time_out", curie=MIXS.curie('0000196'), + model_uri=NMDC_SUB_SCHEMA.samp_time_out, domain=None, range=Optional[str]) + +slots.samp_transport_cond = Slot(uri=MIXS['0000410'], name="samp_transport_cond", curie=MIXS.curie('0000410'), + model_uri=NMDC_SUB_SCHEMA.samp_transport_cond, domain=None, range=Optional[str]) + +slots.samp_tvdss = Slot(uri=MIXS['0000409'], name="samp_tvdss", curie=MIXS.curie('0000409'), + model_uri=NMDC_SUB_SCHEMA.samp_tvdss, domain=None, range=Optional[str]) + +slots.samp_type = Slot(uri=MIXS['0000998'], name="samp_type", curie=MIXS.curie('0000998'), + model_uri=NMDC_SUB_SCHEMA.samp_type, domain=None, range=Optional[str]) + +slots.samp_weather = Slot(uri=MIXS['0000827'], name="samp_weather", curie=MIXS.curie('0000827'), + model_uri=NMDC_SUB_SCHEMA.samp_weather, domain=None, range=Optional[Union[str, "SampWeatherEnum"]]) + +slots.samp_well_name = Slot(uri=MIXS['0000296'], name="samp_well_name", curie=MIXS.curie('0000296'), + model_uri=NMDC_SUB_SCHEMA.samp_well_name, domain=None, range=Optional[str]) + +slots.sample_link = Slot(uri=NMDC_SUB_SCHEMA.sample_link, name="sample_link", curie=NMDC_SUB_SCHEMA.curie('sample_link'), + model_uri=NMDC_SUB_SCHEMA.sample_link, domain=None, range=Optional[str]) + +slots.sample_shipped = Slot(uri=NMDC_SUB_SCHEMA.sample_shipped, name="sample_shipped", curie=NMDC_SUB_SCHEMA.curie('sample_shipped'), + model_uri=NMDC_SUB_SCHEMA.sample_shipped, domain=None, range=Optional[str]) + +slots.sample_type = Slot(uri=NMDC_SUB_SCHEMA.sample_type, name="sample_type", curie=NMDC_SUB_SCHEMA.curie('sample_type'), + model_uri=NMDC_SUB_SCHEMA.sample_type, domain=None, range=Optional[Union[str, "SampleTypeEnum"]]) + +slots.saturates_pc = Slot(uri=MIXS['0000131'], name="saturates_pc", curie=MIXS.curie('0000131'), + model_uri=NMDC_SUB_SCHEMA.saturates_pc, domain=None, range=Optional[str]) + +slots.season = Slot(uri=MIXS['0000829'], name="season", curie=MIXS.curie('0000829'), + model_uri=NMDC_SUB_SCHEMA.season, domain=None, range=Optional[str]) + +slots.season_environment = Slot(uri=MIXS['0001068'], name="season_environment", curie=MIXS.curie('0001068'), + model_uri=NMDC_SUB_SCHEMA.season_environment, domain=None, range=Optional[str]) + +slots.season_precpt = Slot(uri=MIXS['0000645'], name="season_precpt", curie=MIXS.curie('0000645'), + model_uri=NMDC_SUB_SCHEMA.season_precpt, domain=None, range=Optional[str]) + +slots.season_temp = Slot(uri=MIXS['0000643'], name="season_temp", curie=MIXS.curie('0000643'), + model_uri=NMDC_SUB_SCHEMA.season_temp, domain=None, range=Optional[str]) + +slots.season_use = Slot(uri=MIXS['0000830'], name="season_use", curie=MIXS.curie('0000830'), + model_uri=NMDC_SUB_SCHEMA.season_use, domain=None, range=Optional[Union[str, "SeasonUseEnum"]]) + +slots.secondary_treatment = Slot(uri=MIXS['0000351'], name="secondary_treatment", curie=MIXS.curie('0000351'), + model_uri=NMDC_SUB_SCHEMA.secondary_treatment, domain=None, range=Optional[str]) + +slots.sediment_type = Slot(uri=MIXS['0001078'], name="sediment_type", curie=MIXS.curie('0001078'), + model_uri=NMDC_SUB_SCHEMA.sediment_type, domain=None, range=Optional[Union[str, "SedimentTypeEnum"]]) + +slots.sewage_type = Slot(uri=MIXS['0000215'], name="sewage_type", curie=MIXS.curie('0000215'), + model_uri=NMDC_SUB_SCHEMA.sewage_type, domain=None, range=Optional[str]) + +slots.shad_dev_water_mold = Slot(uri=MIXS['0000834'], name="shad_dev_water_mold", curie=MIXS.curie('0000834'), + model_uri=NMDC_SUB_SCHEMA.shad_dev_water_mold, domain=None, range=Optional[str]) + +slots.shading_device_cond = Slot(uri=MIXS['0000831'], name="shading_device_cond", curie=MIXS.curie('0000831'), + model_uri=NMDC_SUB_SCHEMA.shading_device_cond, domain=None, range=Optional[Union[str, "ShadingDeviceCondEnum"]]) + +slots.shading_device_loc = Slot(uri=MIXS['0000832'], name="shading_device_loc", curie=MIXS.curie('0000832'), + model_uri=NMDC_SUB_SCHEMA.shading_device_loc, domain=None, range=Optional[str]) + +slots.shading_device_mat = Slot(uri=MIXS['0000245'], name="shading_device_mat", curie=MIXS.curie('0000245'), + model_uri=NMDC_SUB_SCHEMA.shading_device_mat, domain=None, range=Optional[str]) + +slots.shading_device_type = Slot(uri=MIXS['0000835'], name="shading_device_type", curie=MIXS.curie('0000835'), + model_uri=NMDC_SUB_SCHEMA.shading_device_type, domain=None, range=Optional[Union[str, "ShadingDeviceTypeEnum"]]) + +slots.sieving = Slot(uri=MIXS['0000322'], name="sieving", curie=MIXS.curie('0000322'), + model_uri=NMDC_SUB_SCHEMA.sieving, domain=None, range=Optional[str]) + +slots.silicate = Slot(uri=MIXS['0000184'], name="silicate", curie=MIXS.curie('0000184'), + model_uri=NMDC_SUB_SCHEMA.silicate, domain=None, range=Optional[str]) + +slots.size_frac = Slot(uri=MIXS['0000017'], name="size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.size_frac, domain=None, range=Optional[str]) + +slots.size_frac_low = Slot(uri=MIXS['0000735'], name="size_frac_low", curie=MIXS.curie('0000735'), + model_uri=NMDC_SUB_SCHEMA.size_frac_low, domain=None, range=Optional[str]) + +slots.size_frac_up = Slot(uri=MIXS['0000736'], name="size_frac_up", curie=MIXS.curie('0000736'), + model_uri=NMDC_SUB_SCHEMA.size_frac_up, domain=None, range=Optional[str]) + +slots.slope_aspect = Slot(uri=MIXS['0000647'], name="slope_aspect", curie=MIXS.curie('0000647'), + model_uri=NMDC_SUB_SCHEMA.slope_aspect, domain=None, range=Optional[str]) + +slots.slope_gradient = Slot(uri=MIXS['0000646'], name="slope_gradient", curie=MIXS.curie('0000646'), + model_uri=NMDC_SUB_SCHEMA.slope_gradient, domain=None, range=Optional[str]) + +slots.sludge_retent_time = Slot(uri=MIXS['0000669'], name="sludge_retent_time", curie=MIXS.curie('0000669'), + model_uri=NMDC_SUB_SCHEMA.sludge_retent_time, domain=None, range=Optional[str]) + +slots.sodium = Slot(uri=MIXS['0000428'], name="sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.sodium, domain=None, range=Optional[str]) + +slots.soil_horizon = Slot(uri=MIXS['0001082'], name="soil_horizon", curie=MIXS.curie('0001082'), + model_uri=NMDC_SUB_SCHEMA.soil_horizon, domain=None, range=Optional[Union[str, "SoilHorizonEnum"]]) + +slots.soil_text_measure = Slot(uri=MIXS['0000335'], name="soil_text_measure", curie=MIXS.curie('0000335'), + model_uri=NMDC_SUB_SCHEMA.soil_text_measure, domain=None, range=Optional[str]) + +slots.soil_texture_meth = Slot(uri=MIXS['0000336'], name="soil_texture_meth", curie=MIXS.curie('0000336'), + model_uri=NMDC_SUB_SCHEMA.soil_texture_meth, domain=None, range=Optional[str]) + +slots.soil_type = Slot(uri=MIXS['0000332'], name="soil_type", curie=MIXS.curie('0000332'), + model_uri=NMDC_SUB_SCHEMA.soil_type, domain=None, range=Optional[str]) + +slots.soil_type_meth = Slot(uri=MIXS['0000334'], name="soil_type_meth", curie=MIXS.curie('0000334'), + model_uri=NMDC_SUB_SCHEMA.soil_type_meth, domain=None, range=Optional[str]) + +slots.solar_irradiance = Slot(uri=MIXS['0000112'], name="solar_irradiance", curie=MIXS.curie('0000112'), + model_uri=NMDC_SUB_SCHEMA.solar_irradiance, domain=None, range=Optional[str]) + +slots.soluble_inorg_mat = Slot(uri=MIXS['0000672'], name="soluble_inorg_mat", curie=MIXS.curie('0000672'), + model_uri=NMDC_SUB_SCHEMA.soluble_inorg_mat, domain=None, range=Optional[str]) + +slots.soluble_org_mat = Slot(uri=MIXS['0000673'], name="soluble_org_mat", curie=MIXS.curie('0000673'), + model_uri=NMDC_SUB_SCHEMA.soluble_org_mat, domain=None, range=Optional[str]) + +slots.soluble_react_phosp = Slot(uri=MIXS['0000738'], name="soluble_react_phosp", curie=MIXS.curie('0000738'), + model_uri=NMDC_SUB_SCHEMA.soluble_react_phosp, domain=None, range=Optional[str]) + +slots.source_mat_id = Slot(uri=MIXS['0000026'], name="source_mat_id", curie=MIXS.curie('0000026'), + model_uri=NMDC_SUB_SCHEMA.source_mat_id, domain=None, range=Optional[str]) + +slots.space_typ_state = Slot(uri=MIXS['0000770'], name="space_typ_state", curie=MIXS.curie('0000770'), + model_uri=NMDC_SUB_SCHEMA.space_typ_state, domain=None, range=Optional[str]) + +slots.specific = Slot(uri=MIXS['0000836'], name="specific", curie=MIXS.curie('0000836'), + model_uri=NMDC_SUB_SCHEMA.specific, domain=None, range=Optional[Union[str, "SpecificEnum"]]) + +slots.specific_ecosystem = Slot(uri=NMDC_SUB_SCHEMA.specific_ecosystem, name="specific_ecosystem", curie=NMDC_SUB_SCHEMA.curie('specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.specific_ecosystem, domain=None, range=Optional[str]) + +slots.specific_humidity = Slot(uri=MIXS['0000214'], name="specific_humidity", curie=MIXS.curie('0000214'), + model_uri=NMDC_SUB_SCHEMA.specific_humidity, domain=None, range=Optional[str]) + +slots.sr_dep_env = Slot(uri=MIXS['0000996'], name="sr_dep_env", curie=MIXS.curie('0000996'), + model_uri=NMDC_SUB_SCHEMA.sr_dep_env, domain=None, range=Optional[Union[str, "SrDepEnvEnum"]]) + +slots.sr_geol_age = Slot(uri=MIXS['0000997'], name="sr_geol_age", curie=MIXS.curie('0000997'), + model_uri=NMDC_SUB_SCHEMA.sr_geol_age, domain=None, range=Optional[Union[str, "SrGeolAgeEnum"]]) + +slots.sr_kerog_type = Slot(uri=MIXS['0000994'], name="sr_kerog_type", curie=MIXS.curie('0000994'), + model_uri=NMDC_SUB_SCHEMA.sr_kerog_type, domain=None, range=Optional[Union[str, "SrKerogTypeEnum"]]) + +slots.sr_lithology = Slot(uri=MIXS['0000995'], name="sr_lithology", curie=MIXS.curie('0000995'), + model_uri=NMDC_SUB_SCHEMA.sr_lithology, domain=None, range=Optional[Union[str, "SrLithologyEnum"]]) + +slots.standing_water_regm = Slot(uri=MIXS['0001069'], name="standing_water_regm", curie=MIXS.curie('0001069'), + model_uri=NMDC_SUB_SCHEMA.standing_water_regm, domain=None, range=Optional[str]) + +slots.start_date_inc = Slot(uri=NMDC_SUB_SCHEMA.start_date_inc, name="start_date_inc", curie=NMDC_SUB_SCHEMA.curie('start_date_inc'), + model_uri=NMDC_SUB_SCHEMA.start_date_inc, domain=None, range=Optional[str]) + +slots.start_time_inc = Slot(uri=NMDC_SUB_SCHEMA.start_time_inc, name="start_time_inc", curie=NMDC_SUB_SCHEMA.curie('start_time_inc'), + model_uri=NMDC_SUB_SCHEMA.start_time_inc, domain=None, range=Optional[str]) + +slots.store_cond = Slot(uri=MIXS['0000327'], name="store_cond", curie=MIXS.curie('0000327'), + model_uri=NMDC_SUB_SCHEMA.store_cond, domain=None, range=Optional[str]) + +slots.substructure_type = Slot(uri=MIXS['0000767'], name="substructure_type", curie=MIXS.curie('0000767'), + model_uri=NMDC_SUB_SCHEMA.substructure_type, domain=None, range=Optional[Union[Union[str, "SubstructureTypeEnum"], List[Union[str, "SubstructureTypeEnum"]]]]) + +slots.sulfate = Slot(uri=MIXS['0000423'], name="sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.sulfate, domain=None, range=Optional[str]) + +slots.sulfate_fw = Slot(uri=MIXS['0000407'], name="sulfate_fw", curie=MIXS.curie('0000407'), + model_uri=NMDC_SUB_SCHEMA.sulfate_fw, domain=None, range=Optional[str]) + +slots.sulfide = Slot(uri=MIXS['0000424'], name="sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.sulfide, domain=None, range=Optional[str]) + +slots.surf_air_cont = Slot(uri=MIXS['0000759'], name="surf_air_cont", curie=MIXS.curie('0000759'), + model_uri=NMDC_SUB_SCHEMA.surf_air_cont, domain=None, range=Optional[Union[Union[str, "SurfAirContEnum"], List[Union[str, "SurfAirContEnum"]]]]) + +slots.surf_humidity = Slot(uri=MIXS['0000123'], name="surf_humidity", curie=MIXS.curie('0000123'), + model_uri=NMDC_SUB_SCHEMA.surf_humidity, domain=None, range=Optional[str]) + +slots.surf_material = Slot(uri=MIXS['0000758'], name="surf_material", curie=MIXS.curie('0000758'), + model_uri=NMDC_SUB_SCHEMA.surf_material, domain=None, range=Optional[Union[str, "SurfMaterialEnum"]]) + +slots.surf_moisture = Slot(uri=MIXS['0000128'], name="surf_moisture", curie=MIXS.curie('0000128'), + model_uri=NMDC_SUB_SCHEMA.surf_moisture, domain=None, range=Optional[str]) + +slots.surf_moisture_ph = Slot(uri=MIXS['0000760'], name="surf_moisture_ph", curie=MIXS.curie('0000760'), + model_uri=NMDC_SUB_SCHEMA.surf_moisture_ph, domain=None, range=Optional[float]) + +slots.surf_temp = Slot(uri=MIXS['0000125'], name="surf_temp", curie=MIXS.curie('0000125'), + model_uri=NMDC_SUB_SCHEMA.surf_temp, domain=None, range=Optional[str]) + +slots.suspend_part_matter = Slot(uri=MIXS['0000741'], name="suspend_part_matter", curie=MIXS.curie('0000741'), + model_uri=NMDC_SUB_SCHEMA.suspend_part_matter, domain=None, range=Optional[str]) + +slots.suspend_solids = Slot(uri=MIXS['0000150'], name="suspend_solids", curie=MIXS.curie('0000150'), + model_uri=NMDC_SUB_SCHEMA.suspend_solids, domain=None, range=Optional[str]) + +slots.tan = Slot(uri=MIXS['0000120'], name="tan", curie=MIXS.curie('0000120'), + model_uri=NMDC_SUB_SCHEMA.tan, domain=None, range=Optional[str]) + +slots.technical_reps = Slot(uri=NMDC_SUB_SCHEMA.technical_reps, name="technical_reps", curie=NMDC_SUB_SCHEMA.curie('technical_reps'), + model_uri=NMDC_SUB_SCHEMA.technical_reps, domain=None, range=Optional[str]) + +slots.temp = Slot(uri=MIXS['0000113'], name="temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.temp, domain=None, range=Optional[str]) + +slots.temp_out = Slot(uri=MIXS['0000197'], name="temp_out", curie=MIXS.curie('0000197'), + model_uri=NMDC_SUB_SCHEMA.temp_out, domain=None, range=Optional[str]) + +slots.tertiary_treatment = Slot(uri=MIXS['0000352'], name="tertiary_treatment", curie=MIXS.curie('0000352'), + model_uri=NMDC_SUB_SCHEMA.tertiary_treatment, domain=None, range=Optional[str]) + +slots.tidal_stage = Slot(uri=MIXS['0000750'], name="tidal_stage", curie=MIXS.curie('0000750'), + model_uri=NMDC_SUB_SCHEMA.tidal_stage, domain=None, range=Optional[Union[str, "TidalStageEnum"]]) + +slots.tillage = Slot(uri=MIXS['0001081'], name="tillage", curie=MIXS.curie('0001081'), + model_uri=NMDC_SUB_SCHEMA.tillage, domain=None, range=Optional[Union[Union[str, "TillageEnum"], List[Union[str, "TillageEnum"]]]]) + +slots.tiss_cult_growth_med = Slot(uri=MIXS['0001070'], name="tiss_cult_growth_med", curie=MIXS.curie('0001070'), + model_uri=NMDC_SUB_SCHEMA.tiss_cult_growth_med, domain=None, range=Optional[str]) + +slots.toluene = Slot(uri=MIXS['0000154'], name="toluene", curie=MIXS.curie('0000154'), + model_uri=NMDC_SUB_SCHEMA.toluene, domain=None, range=Optional[str]) + +slots.tot_carb = Slot(uri=MIXS['0000525'], name="tot_carb", curie=MIXS.curie('0000525'), + model_uri=NMDC_SUB_SCHEMA.tot_carb, domain=None, range=Optional[str]) + +slots.tot_depth_water_col = Slot(uri=MIXS['0000634'], name="tot_depth_water_col", curie=MIXS.curie('0000634'), + model_uri=NMDC_SUB_SCHEMA.tot_depth_water_col, domain=None, range=Optional[str]) + +slots.tot_diss_nitro = Slot(uri=MIXS['0000744'], name="tot_diss_nitro", curie=MIXS.curie('0000744'), + model_uri=NMDC_SUB_SCHEMA.tot_diss_nitro, domain=None, range=Optional[str]) + +slots.tot_inorg_nitro = Slot(uri=MIXS['0000745'], name="tot_inorg_nitro", curie=MIXS.curie('0000745'), + model_uri=NMDC_SUB_SCHEMA.tot_inorg_nitro, domain=None, range=Optional[str]) + +slots.tot_iron = Slot(uri=MIXS['0000105'], name="tot_iron", curie=MIXS.curie('0000105'), + model_uri=NMDC_SUB_SCHEMA.tot_iron, domain=None, range=Optional[str]) + +slots.tot_nitro = Slot(uri=MIXS['0000102'], name="tot_nitro", curie=MIXS.curie('0000102'), + model_uri=NMDC_SUB_SCHEMA.tot_nitro, domain=None, range=Optional[str]) + +slots.tot_nitro_cont_meth = Slot(uri=MIXS['0000338'], name="tot_nitro_cont_meth", curie=MIXS.curie('0000338'), + model_uri=NMDC_SUB_SCHEMA.tot_nitro_cont_meth, domain=None, range=Optional[str]) + +slots.tot_nitro_content = Slot(uri=MIXS['0000530'], name="tot_nitro_content", curie=MIXS.curie('0000530'), + model_uri=NMDC_SUB_SCHEMA.tot_nitro_content, domain=None, range=Optional[str]) + +slots.tot_org_c_meth = Slot(uri=MIXS['0000337'], name="tot_org_c_meth", curie=MIXS.curie('0000337'), + model_uri=NMDC_SUB_SCHEMA.tot_org_c_meth, domain=None, range=Optional[str]) + +slots.tot_org_carb = Slot(uri=MIXS['0000533'], name="tot_org_carb", curie=MIXS.curie('0000533'), + model_uri=NMDC_SUB_SCHEMA.tot_org_carb, domain=None, range=Optional[str]) + +slots.tot_part_carb = Slot(uri=MIXS['0000747'], name="tot_part_carb", curie=MIXS.curie('0000747'), + model_uri=NMDC_SUB_SCHEMA.tot_part_carb, domain=None, range=Optional[str]) + +slots.tot_phosp = Slot(uri=MIXS['0000117'], name="tot_phosp", curie=MIXS.curie('0000117'), + model_uri=NMDC_SUB_SCHEMA.tot_phosp, domain=None, range=Optional[str]) + +slots.tot_phosphate = Slot(uri=MIXS['0000689'], name="tot_phosphate", curie=MIXS.curie('0000689'), + model_uri=NMDC_SUB_SCHEMA.tot_phosphate, domain=None, range=Optional[str]) + +slots.tot_sulfur = Slot(uri=MIXS['0000419'], name="tot_sulfur", curie=MIXS.curie('0000419'), + model_uri=NMDC_SUB_SCHEMA.tot_sulfur, domain=None, range=Optional[str]) + +slots.train_line = Slot(uri=MIXS['0000837'], name="train_line", curie=MIXS.curie('0000837'), + model_uri=NMDC_SUB_SCHEMA.train_line, domain=None, range=Optional[Union[str, "TrainLineEnum"]]) + +slots.train_stat_loc = Slot(uri=MIXS['0000838'], name="train_stat_loc", curie=MIXS.curie('0000838'), + model_uri=NMDC_SUB_SCHEMA.train_stat_loc, domain=None, range=Optional[Union[str, "TrainStatLocEnum"]]) + +slots.train_stop_loc = Slot(uri=MIXS['0000839'], name="train_stop_loc", curie=MIXS.curie('0000839'), + model_uri=NMDC_SUB_SCHEMA.train_stop_loc, domain=None, range=Optional[Union[str, "TrainStopLocEnum"]]) + +slots.turbidity = Slot(uri=MIXS['0000191'], name="turbidity", curie=MIXS.curie('0000191'), + model_uri=NMDC_SUB_SCHEMA.turbidity, domain=None, range=Optional[str]) + +slots.tvdss_of_hcr_press = Slot(uri=MIXS['0000397'], name="tvdss_of_hcr_press", curie=MIXS.curie('0000397'), + model_uri=NMDC_SUB_SCHEMA.tvdss_of_hcr_press, domain=None, range=Optional[str]) + +slots.tvdss_of_hcr_temp = Slot(uri=MIXS['0000394'], name="tvdss_of_hcr_temp", curie=MIXS.curie('0000394'), + model_uri=NMDC_SUB_SCHEMA.tvdss_of_hcr_temp, domain=None, range=Optional[str]) + +slots.typ_occup_density = Slot(uri=MIXS['0000771'], name="typ_occup_density", curie=MIXS.curie('0000771'), + model_uri=NMDC_SUB_SCHEMA.typ_occup_density, domain=None, range=Optional[float]) + +slots.ventilation_rate = Slot(uri=MIXS['0000114'], name="ventilation_rate", curie=MIXS.curie('0000114'), + model_uri=NMDC_SUB_SCHEMA.ventilation_rate, domain=None, range=Optional[str]) + +slots.ventilation_type = Slot(uri=MIXS['0000756'], name="ventilation_type", curie=MIXS.curie('0000756'), + model_uri=NMDC_SUB_SCHEMA.ventilation_type, domain=None, range=Optional[str]) + +slots.vfa = Slot(uri=MIXS['0000152'], name="vfa", curie=MIXS.curie('0000152'), + model_uri=NMDC_SUB_SCHEMA.vfa, domain=None, range=Optional[str]) + +slots.vfa_fw = Slot(uri=MIXS['0000408'], name="vfa_fw", curie=MIXS.curie('0000408'), + model_uri=NMDC_SUB_SCHEMA.vfa_fw, domain=None, range=Optional[str]) + +slots.vis_media = Slot(uri=MIXS['0000840'], name="vis_media", curie=MIXS.curie('0000840'), + model_uri=NMDC_SUB_SCHEMA.vis_media, domain=None, range=Optional[Union[str, "VisMediaEnum"]]) + +slots.viscosity = Slot(uri=MIXS['0000126'], name="viscosity", curie=MIXS.curie('0000126'), + model_uri=NMDC_SUB_SCHEMA.viscosity, domain=None, range=Optional[str]) + +slots.volatile_org_comp = Slot(uri=MIXS['0000115'], name="volatile_org_comp", curie=MIXS.curie('0000115'), + model_uri=NMDC_SUB_SCHEMA.volatile_org_comp, domain=None, range=Optional[str]) + +slots.wall_area = Slot(uri=MIXS['0000198'], name="wall_area", curie=MIXS.curie('0000198'), + model_uri=NMDC_SUB_SCHEMA.wall_area, domain=None, range=Optional[str]) + +slots.wall_const_type = Slot(uri=MIXS['0000841'], name="wall_const_type", curie=MIXS.curie('0000841'), + model_uri=NMDC_SUB_SCHEMA.wall_const_type, domain=None, range=Optional[Union[str, "WallConstTypeEnum"]]) + +slots.wall_finish_mat = Slot(uri=MIXS['0000842'], name="wall_finish_mat", curie=MIXS.curie('0000842'), + model_uri=NMDC_SUB_SCHEMA.wall_finish_mat, domain=None, range=Optional[Union[str, "WallFinishMatEnum"]]) + +slots.wall_height = Slot(uri=MIXS['0000221'], name="wall_height", curie=MIXS.curie('0000221'), + model_uri=NMDC_SUB_SCHEMA.wall_height, domain=None, range=Optional[str]) + +slots.wall_loc = Slot(uri=MIXS['0000843'], name="wall_loc", curie=MIXS.curie('0000843'), + model_uri=NMDC_SUB_SCHEMA.wall_loc, domain=None, range=Optional[Union[str, "WallLocEnum"]]) + +slots.wall_surf_treatment = Slot(uri=MIXS['0000845'], name="wall_surf_treatment", curie=MIXS.curie('0000845'), + model_uri=NMDC_SUB_SCHEMA.wall_surf_treatment, domain=None, range=Optional[Union[str, "WallSurfTreatmentEnum"]]) + +slots.wall_texture = Slot(uri=MIXS['0000846'], name="wall_texture", curie=MIXS.curie('0000846'), + model_uri=NMDC_SUB_SCHEMA.wall_texture, domain=None, range=Optional[Union[str, "WallTextureEnum"]]) + +slots.wall_thermal_mass = Slot(uri=MIXS['0000222'], name="wall_thermal_mass", curie=MIXS.curie('0000222'), + model_uri=NMDC_SUB_SCHEMA.wall_thermal_mass, domain=None, range=Optional[str]) + +slots.wall_water_mold = Slot(uri=MIXS['0000844'], name="wall_water_mold", curie=MIXS.curie('0000844'), + model_uri=NMDC_SUB_SCHEMA.wall_water_mold, domain=None, range=Optional[str]) + +slots.wastewater_type = Slot(uri=MIXS['0000353'], name="wastewater_type", curie=MIXS.curie('0000353'), + model_uri=NMDC_SUB_SCHEMA.wastewater_type, domain=None, range=Optional[str]) + +slots.water_cont_soil_meth = Slot(uri=MIXS['0000323'], name="water_cont_soil_meth", curie=MIXS.curie('0000323'), + model_uri=NMDC_SUB_SCHEMA.water_cont_soil_meth, domain=None, range=Optional[str]) + +slots.water_content = Slot(uri=MIXS['0000185'], name="water_content", curie=MIXS.curie('0000185'), + model_uri=NMDC_SUB_SCHEMA.water_content, domain=None, range=Optional[str]) + +slots.water_current = Slot(uri=MIXS['0000203'], name="water_current", curie=MIXS.curie('0000203'), + model_uri=NMDC_SUB_SCHEMA.water_current, domain=None, range=Optional[str]) + +slots.water_cut = Slot(uri=MIXS['0000454'], name="water_cut", curie=MIXS.curie('0000454'), + model_uri=NMDC_SUB_SCHEMA.water_cut, domain=None, range=Optional[str]) + +slots.water_feat_size = Slot(uri=MIXS['0000223'], name="water_feat_size", curie=MIXS.curie('0000223'), + model_uri=NMDC_SUB_SCHEMA.water_feat_size, domain=None, range=Optional[str]) + +slots.water_feat_type = Slot(uri=MIXS['0000847'], name="water_feat_type", curie=MIXS.curie('0000847'), + model_uri=NMDC_SUB_SCHEMA.water_feat_type, domain=None, range=Optional[Union[str, "WaterFeatTypeEnum"]]) + +slots.water_prod_rate = Slot(uri=MIXS['0000453'], name="water_prod_rate", curie=MIXS.curie('0000453'), + model_uri=NMDC_SUB_SCHEMA.water_prod_rate, domain=None, range=Optional[str]) + +slots.water_temp_regm = Slot(uri=MIXS['0000590'], name="water_temp_regm", curie=MIXS.curie('0000590'), + model_uri=NMDC_SUB_SCHEMA.water_temp_regm, domain=None, range=Optional[str]) + +slots.watering_regm = Slot(uri=MIXS['0000591'], name="watering_regm", curie=MIXS.curie('0000591'), + model_uri=NMDC_SUB_SCHEMA.watering_regm, domain=None, range=Optional[str]) + +slots.weekday = Slot(uri=MIXS['0000848'], name="weekday", curie=MIXS.curie('0000848'), + model_uri=NMDC_SUB_SCHEMA.weekday, domain=None, range=Optional[Union[str, "WeekdayEnum"]]) + +slots.win = Slot(uri=MIXS['0000297'], name="win", curie=MIXS.curie('0000297'), + model_uri=NMDC_SUB_SCHEMA.win, domain=None, range=Optional[str]) + +slots.wind_direction = Slot(uri=MIXS['0000757'], name="wind_direction", curie=MIXS.curie('0000757'), + model_uri=NMDC_SUB_SCHEMA.wind_direction, domain=None, range=Optional[str]) + +slots.wind_speed = Slot(uri=MIXS['0000118'], name="wind_speed", curie=MIXS.curie('0000118'), + model_uri=NMDC_SUB_SCHEMA.wind_speed, domain=None, range=Optional[str]) + +slots.window_cond = Slot(uri=MIXS['0000849'], name="window_cond", curie=MIXS.curie('0000849'), + model_uri=NMDC_SUB_SCHEMA.window_cond, domain=None, range=Optional[Union[str, "WindowCondEnum"]]) + +slots.window_cover = Slot(uri=MIXS['0000850'], name="window_cover", curie=MIXS.curie('0000850'), + model_uri=NMDC_SUB_SCHEMA.window_cover, domain=None, range=Optional[Union[str, "WindowCoverEnum"]]) + +slots.window_horiz_pos = Slot(uri=MIXS['0000851'], name="window_horiz_pos", curie=MIXS.curie('0000851'), + model_uri=NMDC_SUB_SCHEMA.window_horiz_pos, domain=None, range=Optional[Union[str, "WindowHorizPosEnum"]]) + +slots.window_loc = Slot(uri=MIXS['0000852'], name="window_loc", curie=MIXS.curie('0000852'), + model_uri=NMDC_SUB_SCHEMA.window_loc, domain=None, range=Optional[Union[str, "WindowLocEnum"]]) + +slots.window_mat = Slot(uri=MIXS['0000853'], name="window_mat", curie=MIXS.curie('0000853'), + model_uri=NMDC_SUB_SCHEMA.window_mat, domain=None, range=Optional[Union[str, "WindowMatEnum"]]) + +slots.window_open_freq = Slot(uri=MIXS['0000246'], name="window_open_freq", curie=MIXS.curie('0000246'), + model_uri=NMDC_SUB_SCHEMA.window_open_freq, domain=None, range=Optional[str]) + +slots.window_size = Slot(uri=MIXS['0000224'], name="window_size", curie=MIXS.curie('0000224'), + model_uri=NMDC_SUB_SCHEMA.window_size, domain=None, range=Optional[str]) + +slots.window_status = Slot(uri=MIXS['0000855'], name="window_status", curie=MIXS.curie('0000855'), + model_uri=NMDC_SUB_SCHEMA.window_status, domain=None, range=Optional[str]) + +slots.window_type = Slot(uri=MIXS['0000856'], name="window_type", curie=MIXS.curie('0000856'), + model_uri=NMDC_SUB_SCHEMA.window_type, domain=None, range=Optional[Union[str, "WindowTypeEnum"]]) + +slots.window_vert_pos = Slot(uri=MIXS['0000857'], name="window_vert_pos", curie=MIXS.curie('0000857'), + model_uri=NMDC_SUB_SCHEMA.window_vert_pos, domain=None, range=Optional[Union[str, "WindowVertPosEnum"]]) + +slots.window_water_mold = Slot(uri=MIXS['0000854'], name="window_water_mold", curie=MIXS.curie('0000854'), + model_uri=NMDC_SUB_SCHEMA.window_water_mold, domain=None, range=Optional[str]) + +slots.xylene = Slot(uri=MIXS['0000156'], name="xylene", curie=MIXS.curie('0000156'), + model_uri=NMDC_SUB_SCHEMA.xylene, domain=None, range=Optional[str]) + +slots.zinc = Slot(uri=NMDC_SUB_SCHEMA.zinc, name="zinc", curie=NMDC_SUB_SCHEMA.curie('zinc'), + model_uri=NMDC_SUB_SCHEMA.zinc, domain=None, range=Optional[str]) + +slots.gold_path_field = Slot(uri=NMDC_SUB_SCHEMA.gold_path_field, name="gold_path_field", curie=NMDC_SUB_SCHEMA.curie('gold_path_field'), + model_uri=NMDC_SUB_SCHEMA.gold_path_field, domain=None, range=Optional[str]) + +slots.nucleic_acid_sequence_source_field = Slot(uri=NMDC_SUB_SCHEMA.nucleic_acid_sequence_source_field, name="nucleic acid sequence source field", curie=NMDC_SUB_SCHEMA.curie('nucleic_acid_sequence_source_field'), + model_uri=NMDC_SUB_SCHEMA.nucleic_acid_sequence_source_field, domain=None, range=Optional[str]) + +slots.alternative_identifiers = Slot(uri=NMDC_SUB_SCHEMA.alternative_identifiers, name="alternative_identifiers", curie=NMDC_SUB_SCHEMA.curie('alternative_identifiers'), + model_uri=NMDC_SUB_SCHEMA.alternative_identifiers, domain=None, range=Optional[str]) + +slots.attribute = Slot(uri=NMDC_SUB_SCHEMA.attribute, name="attribute", curie=NMDC_SUB_SCHEMA.curie('attribute'), + model_uri=NMDC_SUB_SCHEMA.attribute, domain=None, range=Optional[str]) + +slots.environment_field = Slot(uri=NMDC_SUB_SCHEMA.environment_field, name="environment field", curie=NMDC_SUB_SCHEMA.curie('environment_field'), + model_uri=NMDC_SUB_SCHEMA.environment_field, domain=None, range=Optional[str]) + +slots.investigation_field = Slot(uri=NMDC_SUB_SCHEMA.investigation_field, name="investigation field", curie=NMDC_SUB_SCHEMA.curie('investigation_field'), + model_uri=NMDC_SUB_SCHEMA.investigation_field, domain=None, range=Optional[str]) + +slots.description = Slot(uri=DCTERMS.description, name="description", curie=DCTERMS.curie('description'), + model_uri=NMDC_SUB_SCHEMA.description, domain=None, range=Optional[str]) + +slots.language = Slot(uri=NMDC_SUB_SCHEMA.language, name="language", curie=NMDC_SUB_SCHEMA.curie('language'), + model_uri=NMDC_SUB_SCHEMA.language, domain=None, range=Optional[str]) + +slots.name = Slot(uri=NMDC_SUB_SCHEMA.name, name="name", curie=NMDC_SUB_SCHEMA.curie('name'), + model_uri=NMDC_SUB_SCHEMA.name, domain=None, range=Optional[str]) + +slots.core_field = Slot(uri=NMDC_SUB_SCHEMA.core_field, name="core field", curie=NMDC_SUB_SCHEMA.curie('core_field'), + model_uri=NMDC_SUB_SCHEMA.core_field, domain=None, range=Optional[str]) + +slots.id = Slot(uri=NMDC_SUB_SCHEMA.id, name="id", curie=NMDC_SUB_SCHEMA.curie('id'), + model_uri=NMDC_SUB_SCHEMA.id, domain=None, range=URIRef) + +slots.AirInterface_air_PM_concen = Slot(uri=MIXS['0000108'], name="AirInterface_air_PM_concen", curie=MIXS.curie('0000108'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_air_PM_concen, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.AirInterface_alt = Slot(uri=MIXS['0000094'], name="AirInterface_alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_alt, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_barometric_press = Slot(uri=MIXS['0000096'], name="AirInterface_barometric_press", curie=MIXS.curie('0000096'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_barometric_press, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_carb_dioxide = Slot(uri=MIXS['0000097'], name="AirInterface_carb_dioxide", curie=MIXS.curie('0000097'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_carb_dioxide, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_carb_monoxide = Slot(uri=MIXS['0000098'], name="AirInterface_carb_monoxide", curie=MIXS.curie('0000098'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_carb_monoxide, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_chem_administration = Slot(uri=MIXS['0000751'], name="AirInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_chem_administration, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.AirInterface_collection_date = Slot(uri=MIXS['0000011'], name="AirInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_collection_date, domain=AirInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.AirInterface_depth = Slot(uri=MIXS['0000018'], name="AirInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_depth, domain=AirInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.AirInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="AirInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ecosystem, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="AirInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ecosystem_category, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="AirInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ecosystem_subtype, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="AirInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ecosystem_type, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_elev = Slot(uri=MIXS['0000093'], name="AirInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_elev, domain=AirInterface, range=float) + +slots.AirInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="AirInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_env_broad_scale, domain=AirInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.AirInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="AirInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_env_local_scale, domain=AirInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.AirInterface_env_medium = Slot(uri=MIXS['0000014'], name="AirInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_env_medium, domain=AirInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.AirInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="AirInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_env_package, domain=AirInterface, range=str) + +slots.AirInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="AirInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_experimental_factor, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="AirInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_geo_loc_name, domain=AirInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.AirInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="AirInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_horizon_meth, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_humidity = Slot(uri=MIXS['0000100'], name="AirInterface_humidity", curie=MIXS.curie('0000100'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_humidity, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_lat_lon = Slot(uri=MIXS['0000009'], name="AirInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_lat_lon, domain=AirInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.AirInterface_methane = Slot(uri=MIXS['0000101'], name="AirInterface_methane", curie=MIXS.curie('0000101'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_methane, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_misc_param = Slot(uri=MIXS['0000752'], name="AirInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_misc_param, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.AirInterface_organism_count = Slot(uri=MIXS['0000103'], name="AirInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_organism_count, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.AirInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="AirInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_oxy_stat_samp, domain=AirInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.AirInterface_oxygen = Slot(uri=MIXS['0000104'], name="AirInterface_oxygen", curie=MIXS.curie('0000104'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_oxygen, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_perturbation = Slot(uri=MIXS['0000754'], name="AirInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_perturbation, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_pollutants = Slot(uri=MIXS['0000107'], name="AirInterface_pollutants", curie=MIXS.curie('0000107'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_pollutants, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.AirInterface_salinity = Slot(uri=MIXS['0000183'], name="AirInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_salinity, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="AirInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_collec_device, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="AirInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_collec_method, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="AirInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_mat_process, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_samp_size = Slot(uri=MIXS['0000001'], name="AirInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_size, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.AirInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="AirInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_store_dur, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="AirInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_store_loc, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="AirInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_samp_store_temp, domain=AirInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="AirInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_sample_link, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.AirInterface_size_frac = Slot(uri=MIXS['0000017'], name="AirInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_size_frac, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_solar_irradiance = Slot(uri=MIXS['0000112'], name="AirInterface_solar_irradiance", curie=MIXS.curie('0000112'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_solar_irradiance, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="AirInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_specific_ecosystem, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_temp = Slot(uri=MIXS['0000113'], name="AirInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_temp, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_ventilation_rate = Slot(uri=MIXS['0000114'], name="AirInterface_ventilation_rate", curie=MIXS.curie('0000114'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ventilation_rate, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.AirInterface_ventilation_type = Slot(uri=MIXS['0000756'], name="AirInterface_ventilation_type", curie=MIXS.curie('0000756'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_ventilation_type, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_volatile_org_comp = Slot(uri=MIXS['0000115'], name="AirInterface_volatile_org_comp", curie=MIXS.curie('0000115'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_volatile_org_comp, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.AirInterface_wind_direction = Slot(uri=MIXS['0000757'], name="AirInterface_wind_direction", curie=MIXS.curie('0000757'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_wind_direction, domain=AirInterface, range=Optional[str]) + +slots.AirInterface_wind_speed = Slot(uri=MIXS['0000118'], name="AirInterface_wind_speed", curie=MIXS.curie('0000118'), + model_uri=NMDC_SUB_SCHEMA.AirInterface_wind_speed, domain=AirInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_alkalinity = Slot(uri=MIXS['0000421'], name="BiofilmInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_alkalinity, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_alkyl_diethers = Slot(uri=MIXS['0000490'], name="BiofilmInterface_alkyl_diethers", curie=MIXS.curie('0000490'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_alkyl_diethers, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_alt = Slot(uri=MIXS['0000094'], name="BiofilmInterface_alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_alt, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_aminopept_act = Slot(uri=MIXS['0000172'], name="BiofilmInterface_aminopept_act", curie=MIXS.curie('0000172'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_aminopept_act, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_ammonium = Slot(uri=MIXS['0000427'], name="BiofilmInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ammonium, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_bacteria_carb_prod = Slot(uri=MIXS['0000173'], name="BiofilmInterface_bacteria_carb_prod", curie=MIXS.curie('0000173'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_bacteria_carb_prod, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_biomass = Slot(uri=MIXS['0000174'], name="BiofilmInterface_biomass", curie=MIXS.curie('0000174'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_biomass, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_bishomohopanol = Slot(uri=MIXS['0000175'], name="BiofilmInterface_bishomohopanol", curie=MIXS.curie('0000175'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_bishomohopanol, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_bromide = Slot(uri=MIXS['0000176'], name="BiofilmInterface_bromide", curie=MIXS.curie('0000176'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_bromide, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_calcium = Slot(uri=MIXS['0000432'], name="BiofilmInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_calcium, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_carb_nitro_ratio = Slot(uri=MIXS['0000310'], name="BiofilmInterface_carb_nitro_ratio", curie=MIXS.curie('0000310'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_carb_nitro_ratio, domain=BiofilmInterface, range=Optional[float], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_chem_administration = Slot(uri=MIXS['0000751'], name="BiofilmInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_chem_administration, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.BiofilmInterface_chloride = Slot(uri=MIXS['0000429'], name="BiofilmInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_chloride, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_chlorophyll = Slot(uri=MIXS['0000177'], name="BiofilmInterface_chlorophyll", curie=MIXS.curie('0000177'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_chlorophyll, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_collection_date = Slot(uri=MIXS['0000011'], name="BiofilmInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_collection_date, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.BiofilmInterface_depth = Slot(uri=MIXS['0000018'], name="BiofilmInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_depth, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.BiofilmInterface_diether_lipids = Slot(uri=MIXS['0000178'], name="BiofilmInterface_diether_lipids", curie=MIXS.curie('0000178'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diether_lipids, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="BiofilmInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_carb_dioxide, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_diss_hydrogen = Slot(uri=MIXS['0000179'], name="BiofilmInterface_diss_hydrogen", curie=MIXS.curie('0000179'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_hydrogen, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="BiofilmInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_inorg_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_diss_org_carb = Slot(uri=MIXS['0000433'], name="BiofilmInterface_diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_org_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_diss_org_nitro = Slot(uri=MIXS['0000162'], name="BiofilmInterface_diss_org_nitro", curie=MIXS.curie('0000162'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_org_nitro, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_diss_oxygen = Slot(uri=MIXS['0000119'], name="BiofilmInterface_diss_oxygen", curie=MIXS.curie('0000119'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_diss_oxygen, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="BiofilmInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ecosystem, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="BiofilmInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ecosystem_category, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="BiofilmInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ecosystem_subtype, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="BiofilmInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ecosystem_type, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_elev = Slot(uri=MIXS['0000093'], name="BiofilmInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_elev, domain=BiofilmInterface, range=float) + +slots.BiofilmInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="BiofilmInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_env_broad_scale, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BiofilmInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="BiofilmInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_env_local_scale, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BiofilmInterface_env_medium = Slot(uri=MIXS['0000014'], name="BiofilmInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_env_medium, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BiofilmInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="BiofilmInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_env_package, domain=BiofilmInterface, range=str) + +slots.BiofilmInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="BiofilmInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_experimental_factor, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="BiofilmInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_geo_loc_name, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.BiofilmInterface_glucosidase_act = Slot(uri=MIXS['0000137'], name="BiofilmInterface_glucosidase_act", curie=MIXS.curie('0000137'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_glucosidase_act, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="BiofilmInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_horizon_meth, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_lat_lon = Slot(uri=MIXS['0000009'], name="BiofilmInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_lat_lon, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.BiofilmInterface_magnesium = Slot(uri=MIXS['0000431'], name="BiofilmInterface_magnesium", curie=MIXS.curie('0000431'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_magnesium, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_mean_frict_vel = Slot(uri=MIXS['0000498'], name="BiofilmInterface_mean_frict_vel", curie=MIXS.curie('0000498'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_mean_frict_vel, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_mean_peak_frict_vel = Slot(uri=MIXS['0000502'], name="BiofilmInterface_mean_peak_frict_vel", curie=MIXS.curie('0000502'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_mean_peak_frict_vel, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_methane = Slot(uri=MIXS['0000101'], name="BiofilmInterface_methane", curie=MIXS.curie('0000101'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_methane, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_misc_param = Slot(uri=MIXS['0000752'], name="BiofilmInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_misc_param, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_n_alkanes = Slot(uri=MIXS['0000503'], name="BiofilmInterface_n_alkanes", curie=MIXS.curie('0000503'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_n_alkanes, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_nitrate = Slot(uri=MIXS['0000425'], name="BiofilmInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_nitrate, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_nitrite = Slot(uri=MIXS['0000426'], name="BiofilmInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_nitrite, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_nitro = Slot(uri=MIXS['0000504'], name="BiofilmInterface_nitro", curie=MIXS.curie('0000504'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_nitro, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_org_carb = Slot(uri=MIXS['0000508'], name="BiofilmInterface_org_carb", curie=MIXS.curie('0000508'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_org_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_org_matter = Slot(uri=MIXS['0000204'], name="BiofilmInterface_org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_org_matter, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_org_nitro = Slot(uri=MIXS['0000205'], name="BiofilmInterface_org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_org_nitro, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_organism_count = Slot(uri=MIXS['0000103'], name="BiofilmInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_organism_count, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.BiofilmInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="BiofilmInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_oxy_stat_samp, domain=BiofilmInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.BiofilmInterface_part_org_carb = Slot(uri=MIXS['0000515'], name="BiofilmInterface_part_org_carb", curie=MIXS.curie('0000515'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_part_org_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_perturbation = Slot(uri=MIXS['0000754'], name="BiofilmInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_perturbation, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_petroleum_hydrocarb = Slot(uri=MIXS['0000516'], name="BiofilmInterface_petroleum_hydrocarb", curie=MIXS.curie('0000516'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_petroleum_hydrocarb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_ph = Slot(uri=MIXS['0001001'], name="BiofilmInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ph, domain=BiofilmInterface, range=Optional[float]) + +slots.BiofilmInterface_ph_meth = Slot(uri=MIXS['0001106'], name="BiofilmInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_ph_meth, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_phaeopigments = Slot(uri=MIXS['0000180'], name="BiofilmInterface_phaeopigments", curie=MIXS.curie('0000180'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_phaeopigments, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_phosphate = Slot(uri=MIXS['0000505'], name="BiofilmInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_phosphate, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_phosplipid_fatt_acid = Slot(uri=MIXS['0000181'], name="BiofilmInterface_phosplipid_fatt_acid", curie=MIXS.curie('0000181'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_phosplipid_fatt_acid, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.BiofilmInterface_potassium = Slot(uri=MIXS['0000430'], name="BiofilmInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_potassium, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_pressure = Slot(uri=MIXS['0000412'], name="BiofilmInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_pressure, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_redox_potential = Slot(uri=MIXS['0000182'], name="BiofilmInterface_redox_potential", curie=MIXS.curie('0000182'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_redox_potential, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_salinity = Slot(uri=MIXS['0000183'], name="BiofilmInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_salinity, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="BiofilmInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_collec_device, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="BiofilmInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_collec_method, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="BiofilmInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_mat_process, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_samp_size = Slot(uri=MIXS['0000001'], name="BiofilmInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_size, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.BiofilmInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="BiofilmInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_store_dur, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="BiofilmInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_store_loc, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="BiofilmInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_samp_store_temp, domain=BiofilmInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="BiofilmInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_sample_link, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.BiofilmInterface_silicate = Slot(uri=MIXS['0000184'], name="BiofilmInterface_silicate", curie=MIXS.curie('0000184'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_silicate, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_size_frac = Slot(uri=MIXS['0000017'], name="BiofilmInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_size_frac, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_sodium = Slot(uri=MIXS['0000428'], name="BiofilmInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_sodium, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="BiofilmInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_specific_ecosystem, domain=BiofilmInterface, range=Optional[str]) + +slots.BiofilmInterface_sulfate = Slot(uri=MIXS['0000423'], name="BiofilmInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_sulfate, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_sulfide = Slot(uri=MIXS['0000424'], name="BiofilmInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_sulfide, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_temp = Slot(uri=MIXS['0000113'], name="BiofilmInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_temp, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_tot_carb = Slot(uri=MIXS['0000525'], name="BiofilmInterface_tot_carb", curie=MIXS.curie('0000525'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_tot_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_tot_nitro_content = Slot(uri=MIXS['0000530'], name="BiofilmInterface_tot_nitro_content", curie=MIXS.curie('0000530'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_tot_nitro_content, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_tot_org_carb = Slot(uri=MIXS['0000533'], name="BiofilmInterface_tot_org_carb", curie=MIXS.curie('0000533'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_tot_org_carb, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_turbidity = Slot(uri=MIXS['0000191'], name="BiofilmInterface_turbidity", curie=MIXS.curie('0000191'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_turbidity, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BiofilmInterface_water_content = Slot(uri=MIXS['0000185'], name="BiofilmInterface_water_content", curie=MIXS.curie('0000185'), + model_uri=NMDC_SUB_SCHEMA.BiofilmInterface_water_content, domain=BiofilmInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$')) + +slots.BuiltEnvInterface_abs_air_humidity = Slot(uri=MIXS['0000122'], name="BuiltEnvInterface_abs_air_humidity", curie=MIXS.curie('0000122'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_abs_air_humidity, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_address = Slot(uri=MIXS['0000218'], name="BuiltEnvInterface_address", curie=MIXS.curie('0000218'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_address, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_adj_room = Slot(uri=MIXS['0000219'], name="BuiltEnvInterface_adj_room", curie=MIXS.curie('0000219'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_adj_room, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_aero_struc = Slot(uri=MIXS['0000773'], name="BuiltEnvInterface_aero_struc", curie=MIXS.curie('0000773'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_aero_struc, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_air_temp = Slot(uri=MIXS['0000124'], name="BuiltEnvInterface_air_temp", curie=MIXS.curie('0000124'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_air_temp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_alt = Slot(uri=MIXS['0000094'], name="BuiltEnvInterface_alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_alt, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_amount_light = Slot(uri=MIXS['0000140'], name="BuiltEnvInterface_amount_light", curie=MIXS.curie('0000140'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_amount_light, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_arch_struc = Slot(uri=MIXS['0000774'], name="BuiltEnvInterface_arch_struc", curie=MIXS.curie('0000774'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_arch_struc, domain=BuiltEnvInterface, range=Optional[Union[str, "ArchStrucEnum"]]) + +slots.BuiltEnvInterface_avg_dew_point = Slot(uri=MIXS['0000141'], name="BuiltEnvInterface_avg_dew_point", curie=MIXS.curie('0000141'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_avg_dew_point, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_avg_occup = Slot(uri=MIXS['0000775'], name="BuiltEnvInterface_avg_occup", curie=MIXS.curie('0000775'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_avg_occup, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_avg_temp = Slot(uri=MIXS['0000142'], name="BuiltEnvInterface_avg_temp", curie=MIXS.curie('0000142'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_avg_temp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_bathroom_count = Slot(uri=MIXS['0000776'], name="BuiltEnvInterface_bathroom_count", curie=MIXS.curie('0000776'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_bathroom_count, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_bedroom_count = Slot(uri=MIXS['0000777'], name="BuiltEnvInterface_bedroom_count", curie=MIXS.curie('0000777'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_bedroom_count, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_build_docs = Slot(uri=MIXS['0000787'], name="BuiltEnvInterface_build_docs", curie=MIXS.curie('0000787'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_build_docs, domain=BuiltEnvInterface, range=Optional[Union[str, "BuildDocsEnum"]]) + +slots.BuiltEnvInterface_build_occup_type = Slot(uri=MIXS['0000761'], name="BuiltEnvInterface_build_occup_type", curie=MIXS.curie('0000761'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_build_occup_type, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "BuildOccupTypeEnum"], List[Union[str, "BuildOccupTypeEnum"]]]]) + +slots.BuiltEnvInterface_building_setting = Slot(uri=MIXS['0000768'], name="BuiltEnvInterface_building_setting", curie=MIXS.curie('0000768'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_building_setting, domain=BuiltEnvInterface, range=Optional[Union[str, "BuildingSettingEnum"]]) + +slots.BuiltEnvInterface_built_struc_age = Slot(uri=MIXS['0000145'], name="BuiltEnvInterface_built_struc_age", curie=MIXS.curie('0000145'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_built_struc_age, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_built_struc_set = Slot(uri=MIXS['0000778'], name="BuiltEnvInterface_built_struc_set", curie=MIXS.curie('0000778'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_built_struc_set, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_built_struc_type = Slot(uri=MIXS['0000721'], name="BuiltEnvInterface_built_struc_type", curie=MIXS.curie('0000721'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_built_struc_type, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_carb_dioxide = Slot(uri=MIXS['0000097'], name="BuiltEnvInterface_carb_dioxide", curie=MIXS.curie('0000097'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_carb_dioxide, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_ceil_area = Slot(uri=MIXS['0000148'], name="BuiltEnvInterface_ceil_area", curie=MIXS.curie('0000148'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_area, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_ceil_cond = Slot(uri=MIXS['0000779'], name="BuiltEnvInterface_ceil_cond", curie=MIXS.curie('0000779'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "CeilCondEnum"]]) + +slots.BuiltEnvInterface_ceil_finish_mat = Slot(uri=MIXS['0000780'], name="BuiltEnvInterface_ceil_finish_mat", curie=MIXS.curie('0000780'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_finish_mat, domain=BuiltEnvInterface, range=Optional[Union[str, "CeilFinishMatEnum"]]) + +slots.BuiltEnvInterface_ceil_struc = Slot(uri=MIXS['0000782'], name="BuiltEnvInterface_ceil_struc", curie=MIXS.curie('0000782'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_struc, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ceil_texture = Slot(uri=MIXS['0000783'], name="BuiltEnvInterface_ceil_texture", curie=MIXS.curie('0000783'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_texture, domain=BuiltEnvInterface, range=Optional[Union[str, "CeilTextureEnum"]]) + +slots.BuiltEnvInterface_ceil_thermal_mass = Slot(uri=MIXS['0000143'], name="BuiltEnvInterface_ceil_thermal_mass", curie=MIXS.curie('0000143'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_thermal_mass, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_ceil_type = Slot(uri=MIXS['0000784'], name="BuiltEnvInterface_ceil_type", curie=MIXS.curie('0000784'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_type, domain=BuiltEnvInterface, range=Optional[Union[str, "CeilTypeEnum"]]) + +slots.BuiltEnvInterface_ceil_water_mold = Slot(uri=MIXS['0000781'], name="BuiltEnvInterface_ceil_water_mold", curie=MIXS.curie('0000781'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ceil_water_mold, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_collection_date = Slot(uri=MIXS['0000011'], name="BuiltEnvInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_collection_date, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.BuiltEnvInterface_cool_syst_id = Slot(uri=MIXS['0000785'], name="BuiltEnvInterface_cool_syst_id", curie=MIXS.curie('0000785'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_cool_syst_id, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_date_last_rain = Slot(uri=MIXS['0000786'], name="BuiltEnvInterface_date_last_rain", curie=MIXS.curie('0000786'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_date_last_rain, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_depth = Slot(uri=MIXS['0000018'], name="BuiltEnvInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_depth, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.BuiltEnvInterface_dew_point = Slot(uri=MIXS['0000129'], name="BuiltEnvInterface_dew_point", curie=MIXS.curie('0000129'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_dew_point, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_door_comp_type = Slot(uri=MIXS['0000795'], name="BuiltEnvInterface_door_comp_type", curie=MIXS.curie('0000795'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_comp_type, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorCompTypeEnum"]]) + +slots.BuiltEnvInterface_door_cond = Slot(uri=MIXS['0000788'], name="BuiltEnvInterface_door_cond", curie=MIXS.curie('0000788'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorCondEnum"]]) + +slots.BuiltEnvInterface_door_direct = Slot(uri=MIXS['0000789'], name="BuiltEnvInterface_door_direct", curie=MIXS.curie('0000789'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_direct, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorDirectEnum"]]) + +slots.BuiltEnvInterface_door_loc = Slot(uri=MIXS['0000790'], name="BuiltEnvInterface_door_loc", curie=MIXS.curie('0000790'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorLocEnum"]]) + +slots.BuiltEnvInterface_door_mat = Slot(uri=MIXS['0000791'], name="BuiltEnvInterface_door_mat", curie=MIXS.curie('0000791'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_mat, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorMatEnum"]]) + +slots.BuiltEnvInterface_door_move = Slot(uri=MIXS['0000792'], name="BuiltEnvInterface_door_move", curie=MIXS.curie('0000792'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_move, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorMoveEnum"]]) + +slots.BuiltEnvInterface_door_size = Slot(uri=MIXS['0000158'], name="BuiltEnvInterface_door_size", curie=MIXS.curie('0000158'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_size, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_door_type = Slot(uri=MIXS['0000794'], name="BuiltEnvInterface_door_type", curie=MIXS.curie('0000794'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_type, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorTypeEnum"]]) + +slots.BuiltEnvInterface_door_type_metal = Slot(uri=MIXS['0000796'], name="BuiltEnvInterface_door_type_metal", curie=MIXS.curie('0000796'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_type_metal, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorTypeMetalEnum"]]) + +slots.BuiltEnvInterface_door_type_wood = Slot(uri=MIXS['0000797'], name="BuiltEnvInterface_door_type_wood", curie=MIXS.curie('0000797'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_type_wood, domain=BuiltEnvInterface, range=Optional[Union[str, "DoorTypeWoodEnum"]]) + +slots.BuiltEnvInterface_door_water_mold = Slot(uri=MIXS['0000793'], name="BuiltEnvInterface_door_water_mold", curie=MIXS.curie('0000793'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_door_water_mold, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_drawings = Slot(uri=MIXS['0000798'], name="BuiltEnvInterface_drawings", curie=MIXS.curie('0000798'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_drawings, domain=BuiltEnvInterface, range=Optional[Union[str, "DrawingsEnum"]]) + +slots.BuiltEnvInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="BuiltEnvInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ecosystem, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="BuiltEnvInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ecosystem_category, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="BuiltEnvInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ecosystem_subtype, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="BuiltEnvInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ecosystem_type, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_elev = Slot(uri=MIXS['0000093'], name="BuiltEnvInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_elev, domain=BuiltEnvInterface, range=float) + +slots.BuiltEnvInterface_elevator = Slot(uri=MIXS['0000799'], name="BuiltEnvInterface_elevator", curie=MIXS.curie('0000799'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_elevator, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="BuiltEnvInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_env_broad_scale, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BuiltEnvInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="BuiltEnvInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_env_local_scale, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BuiltEnvInterface_env_medium = Slot(uri=MIXS['0000014'], name="BuiltEnvInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_env_medium, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BuiltEnvInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="BuiltEnvInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_env_package, domain=BuiltEnvInterface, range=str) + +slots.BuiltEnvInterface_escalator = Slot(uri=MIXS['0000800'], name="BuiltEnvInterface_escalator", curie=MIXS.curie('0000800'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_escalator, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_exp_duct = Slot(uri=MIXS['0000144'], name="BuiltEnvInterface_exp_duct", curie=MIXS.curie('0000144'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_exp_duct, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_exp_pipe = Slot(uri=MIXS['0000220'], name="BuiltEnvInterface_exp_pipe", curie=MIXS.curie('0000220'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_exp_pipe, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="BuiltEnvInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_experimental_factor, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ext_door = Slot(uri=MIXS['0000170'], name="BuiltEnvInterface_ext_door", curie=MIXS.curie('0000170'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ext_door, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_ext_wall_orient = Slot(uri=MIXS['0000817'], name="BuiltEnvInterface_ext_wall_orient", curie=MIXS.curie('0000817'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ext_wall_orient, domain=BuiltEnvInterface, range=Optional[Union[str, "ExtWallOrientEnum"]]) + +slots.BuiltEnvInterface_ext_window_orient = Slot(uri=MIXS['0000818'], name="BuiltEnvInterface_ext_window_orient", curie=MIXS.curie('0000818'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ext_window_orient, domain=BuiltEnvInterface, range=Optional[Union[str, "ExtWindowOrientEnum"]]) + +slots.BuiltEnvInterface_filter_type = Slot(uri=MIXS['0000765'], name="BuiltEnvInterface_filter_type", curie=MIXS.curie('0000765'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_filter_type, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "FilterTypeEnum"], List[Union[str, "FilterTypeEnum"]]]]) + +slots.BuiltEnvInterface_fireplace_type = Slot(uri=MIXS['0000802'], name="BuiltEnvInterface_fireplace_type", curie=MIXS.curie('0000802'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_fireplace_type, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_floor_age = Slot(uri=MIXS['0000164'], name="BuiltEnvInterface_floor_age", curie=MIXS.curie('0000164'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_age, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_floor_area = Slot(uri=MIXS['0000165'], name="BuiltEnvInterface_floor_area", curie=MIXS.curie('0000165'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_area, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_floor_cond = Slot(uri=MIXS['0000803'], name="BuiltEnvInterface_floor_cond", curie=MIXS.curie('0000803'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "FloorCondEnum"]]) + +slots.BuiltEnvInterface_floor_count = Slot(uri=MIXS['0000225'], name="BuiltEnvInterface_floor_count", curie=MIXS.curie('0000225'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_count, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_floor_finish_mat = Slot(uri=MIXS['0000804'], name="BuiltEnvInterface_floor_finish_mat", curie=MIXS.curie('0000804'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_finish_mat, domain=BuiltEnvInterface, range=Optional[Union[str, "FloorFinishMatEnum"]]) + +slots.BuiltEnvInterface_floor_struc = Slot(uri=MIXS['0000806'], name="BuiltEnvInterface_floor_struc", curie=MIXS.curie('0000806'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_struc, domain=BuiltEnvInterface, range=Optional[Union[str, "FloorStrucEnum"]]) + +slots.BuiltEnvInterface_floor_thermal_mass = Slot(uri=MIXS['0000166'], name="BuiltEnvInterface_floor_thermal_mass", curie=MIXS.curie('0000166'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_thermal_mass, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_floor_water_mold = Slot(uri=MIXS['0000805'], name="BuiltEnvInterface_floor_water_mold", curie=MIXS.curie('0000805'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_floor_water_mold, domain=BuiltEnvInterface, range=Optional[Union[str, "FloorWaterMoldEnum"]]) + +slots.BuiltEnvInterface_freq_clean = Slot(uri=MIXS['0000226'], name="BuiltEnvInterface_freq_clean", curie=MIXS.curie('0000226'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_freq_clean, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_freq_cook = Slot(uri=MIXS['0000227'], name="BuiltEnvInterface_freq_cook", curie=MIXS.curie('0000227'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_freq_cook, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_furniture = Slot(uri=MIXS['0000807'], name="BuiltEnvInterface_furniture", curie=MIXS.curie('0000807'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_furniture, domain=BuiltEnvInterface, range=Optional[Union[str, "FurnitureEnum"]]) + +slots.BuiltEnvInterface_gender_restroom = Slot(uri=MIXS['0000808'], name="BuiltEnvInterface_gender_restroom", curie=MIXS.curie('0000808'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_gender_restroom, domain=BuiltEnvInterface, range=Optional[Union[str, "GenderRestroomEnum"]]) + +slots.BuiltEnvInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="BuiltEnvInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_geo_loc_name, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.BuiltEnvInterface_hall_count = Slot(uri=MIXS['0000228'], name="BuiltEnvInterface_hall_count", curie=MIXS.curie('0000228'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_hall_count, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_handidness = Slot(uri=MIXS['0000809'], name="BuiltEnvInterface_handidness", curie=MIXS.curie('0000809'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_handidness, domain=BuiltEnvInterface, range=Optional[Union[str, "HandidnessEnum"]]) + +slots.BuiltEnvInterface_heat_cool_type = Slot(uri=MIXS['0000766'], name="BuiltEnvInterface_heat_cool_type", curie=MIXS.curie('0000766'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_heat_cool_type, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "HeatCoolTypeEnum"], List[Union[str, "HeatCoolTypeEnum"]]]]) + +slots.BuiltEnvInterface_heat_deliv_loc = Slot(uri=MIXS['0000810'], name="BuiltEnvInterface_heat_deliv_loc", curie=MIXS.curie('0000810'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_heat_deliv_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "HeatDelivLocEnum"]]) + +slots.BuiltEnvInterface_heat_sys_deliv_meth = Slot(uri=MIXS['0000812'], name="BuiltEnvInterface_heat_sys_deliv_meth", curie=MIXS.curie('0000812'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_heat_sys_deliv_meth, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_heat_system_id = Slot(uri=MIXS['0000833'], name="BuiltEnvInterface_heat_system_id", curie=MIXS.curie('0000833'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_heat_system_id, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_height_carper_fiber = Slot(uri=MIXS['0000167'], name="BuiltEnvInterface_height_carper_fiber", curie=MIXS.curie('0000167'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_height_carper_fiber, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="BuiltEnvInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_horizon_meth, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_indoor_space = Slot(uri=MIXS['0000763'], name="BuiltEnvInterface_indoor_space", curie=MIXS.curie('0000763'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_indoor_space, domain=BuiltEnvInterface, range=Optional[Union[str, "IndoorSpaceEnum"]]) + +slots.BuiltEnvInterface_indoor_surf = Slot(uri=MIXS['0000764'], name="BuiltEnvInterface_indoor_surf", curie=MIXS.curie('0000764'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_indoor_surf, domain=BuiltEnvInterface, range=Optional[Union[str, "IndoorSurfEnum"]]) + +slots.BuiltEnvInterface_inside_lux = Slot(uri=MIXS['0000168'], name="BuiltEnvInterface_inside_lux", curie=MIXS.curie('0000168'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_inside_lux, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_int_wall_cond = Slot(uri=MIXS['0000813'], name="BuiltEnvInterface_int_wall_cond", curie=MIXS.curie('0000813'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_int_wall_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "IntWallCondEnum"]]) + +slots.BuiltEnvInterface_last_clean = Slot(uri=MIXS['0000814'], name="BuiltEnvInterface_last_clean", curie=MIXS.curie('0000814'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_last_clean, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_lat_lon = Slot(uri=MIXS['0000009'], name="BuiltEnvInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_lat_lon, domain=BuiltEnvInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.BuiltEnvInterface_light_type = Slot(uri=MIXS['0000769'], name="BuiltEnvInterface_light_type", curie=MIXS.curie('0000769'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_light_type, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "LightTypeEnum"], List[Union[str, "LightTypeEnum"]]]]) + +slots.BuiltEnvInterface_max_occup = Slot(uri=MIXS['0000229'], name="BuiltEnvInterface_max_occup", curie=MIXS.curie('0000229'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_max_occup, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_mech_struc = Slot(uri=MIXS['0000815'], name="BuiltEnvInterface_mech_struc", curie=MIXS.curie('0000815'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_mech_struc, domain=BuiltEnvInterface, range=Optional[Union[str, "MechStrucEnum"]]) + +slots.BuiltEnvInterface_number_pets = Slot(uri=MIXS['0000231'], name="BuiltEnvInterface_number_pets", curie=MIXS.curie('0000231'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_number_pets, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_number_plants = Slot(uri=MIXS['0000230'], name="BuiltEnvInterface_number_plants", curie=MIXS.curie('0000230'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_number_plants, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_number_resident = Slot(uri=MIXS['0000232'], name="BuiltEnvInterface_number_resident", curie=MIXS.curie('0000232'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_number_resident, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_occup_density_samp = Slot(uri=MIXS['0000217'], name="BuiltEnvInterface_occup_density_samp", curie=MIXS.curie('0000217'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_occup_density_samp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_occup_document = Slot(uri=MIXS['0000816'], name="BuiltEnvInterface_occup_document", curie=MIXS.curie('0000816'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_occup_document, domain=BuiltEnvInterface, range=Optional[Union[str, "OccupDocumentEnum"]]) + +slots.BuiltEnvInterface_occup_samp = Slot(uri=MIXS['0000772'], name="BuiltEnvInterface_occup_samp", curie=MIXS.curie('0000772'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_occup_samp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_organism_count = Slot(uri=MIXS['0000103'], name="BuiltEnvInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_organism_count, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.BuiltEnvInterface_pres_animal_insect = Slot(uri=MIXS['0000819'], name="BuiltEnvInterface_pres_animal_insect", curie=MIXS.curie('0000819'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_pres_animal_insect, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^(cat|dog|rodent|snake|other);\d+$')) + +slots.BuiltEnvInterface_quad_pos = Slot(uri=MIXS['0000820'], name="BuiltEnvInterface_quad_pos", curie=MIXS.curie('0000820'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_quad_pos, domain=BuiltEnvInterface, range=Optional[Union[str, "QuadPosEnum"]]) + +slots.BuiltEnvInterface_rel_air_humidity = Slot(uri=MIXS['0000121'], name="BuiltEnvInterface_rel_air_humidity", curie=MIXS.curie('0000121'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_rel_air_humidity, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_rel_humidity_out = Slot(uri=MIXS['0000188'], name="BuiltEnvInterface_rel_humidity_out", curie=MIXS.curie('0000188'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_rel_humidity_out, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_rel_samp_loc = Slot(uri=MIXS['0000821'], name="BuiltEnvInterface_rel_samp_loc", curie=MIXS.curie('0000821'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_rel_samp_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "RelSampLocEnum"]]) + +slots.BuiltEnvInterface_room_air_exch_rate = Slot(uri=MIXS['0000169'], name="BuiltEnvInterface_room_air_exch_rate", curie=MIXS.curie('0000169'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_air_exch_rate, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_room_architec_elem = Slot(uri=MIXS['0000233'], name="BuiltEnvInterface_room_architec_elem", curie=MIXS.curie('0000233'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_architec_elem, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_condt = Slot(uri=MIXS['0000822'], name="BuiltEnvInterface_room_condt", curie=MIXS.curie('0000822'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_condt, domain=BuiltEnvInterface, range=Optional[Union[str, "RoomCondtEnum"]]) + +slots.BuiltEnvInterface_room_connected = Slot(uri=MIXS['0000826'], name="BuiltEnvInterface_room_connected", curie=MIXS.curie('0000826'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_connected, domain=BuiltEnvInterface, range=Optional[Union[str, "RoomConnectedEnum"]]) + +slots.BuiltEnvInterface_room_count = Slot(uri=MIXS['0000234'], name="BuiltEnvInterface_room_count", curie=MIXS.curie('0000234'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_count, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_dim = Slot(uri=MIXS['0000192'], name="BuiltEnvInterface_room_dim", curie=MIXS.curie('0000192'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_dim, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_door_dist = Slot(uri=MIXS['0000193'], name="BuiltEnvInterface_room_door_dist", curie=MIXS.curie('0000193'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_door_dist, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_door_share = Slot(uri=MIXS['0000242'], name="BuiltEnvInterface_room_door_share", curie=MIXS.curie('0000242'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_door_share, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_hallway = Slot(uri=MIXS['0000238'], name="BuiltEnvInterface_room_hallway", curie=MIXS.curie('0000238'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_hallway, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_loc = Slot(uri=MIXS['0000823'], name="BuiltEnvInterface_room_loc", curie=MIXS.curie('0000823'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "RoomLocEnum"]]) + +slots.BuiltEnvInterface_room_moist_dam_hist = Slot(uri=MIXS['0000235'], name="BuiltEnvInterface_room_moist_dam_hist", curie=MIXS.curie('0000235'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_moist_dam_hist, domain=BuiltEnvInterface, range=Optional[int]) + +slots.BuiltEnvInterface_room_net_area = Slot(uri=MIXS['0000194'], name="BuiltEnvInterface_room_net_area", curie=MIXS.curie('0000194'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_net_area, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_occup = Slot(uri=MIXS['0000236'], name="BuiltEnvInterface_room_occup", curie=MIXS.curie('0000236'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_occup, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_room_samp_pos = Slot(uri=MIXS['0000824'], name="BuiltEnvInterface_room_samp_pos", curie=MIXS.curie('0000824'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_samp_pos, domain=BuiltEnvInterface, range=Optional[Union[str, "RoomSampPosEnum"]]) + +slots.BuiltEnvInterface_room_type = Slot(uri=MIXS['0000825'], name="BuiltEnvInterface_room_type", curie=MIXS.curie('0000825'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_type, domain=BuiltEnvInterface, range=Optional[Union[str, "RoomTypeEnum"]]) + +slots.BuiltEnvInterface_room_vol = Slot(uri=MIXS['0000195'], name="BuiltEnvInterface_room_vol", curie=MIXS.curie('0000195'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_vol, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_wall_share = Slot(uri=MIXS['0000243'], name="BuiltEnvInterface_room_wall_share", curie=MIXS.curie('0000243'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_wall_share, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_room_window_count = Slot(uri=MIXS['0000237'], name="BuiltEnvInterface_room_window_count", curie=MIXS.curie('0000237'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_room_window_count, domain=BuiltEnvInterface, range=Optional[int]) + +slots.BuiltEnvInterface_samp_floor = Slot(uri=MIXS['0000828'], name="BuiltEnvInterface_samp_floor", curie=MIXS.curie('0000828'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_samp_floor, domain=BuiltEnvInterface, range=Optional[Union[str, "SampFloorEnum"]]) + +slots.BuiltEnvInterface_samp_room_id = Slot(uri=MIXS['0000244'], name="BuiltEnvInterface_samp_room_id", curie=MIXS.curie('0000244'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_samp_room_id, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_samp_sort_meth = Slot(uri=MIXS['0000216'], name="BuiltEnvInterface_samp_sort_meth", curie=MIXS.curie('0000216'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_samp_sort_meth, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_samp_time_out = Slot(uri=MIXS['0000196'], name="BuiltEnvInterface_samp_time_out", curie=MIXS.curie('0000196'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_samp_time_out, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_samp_weather = Slot(uri=MIXS['0000827'], name="BuiltEnvInterface_samp_weather", curie=MIXS.curie('0000827'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_samp_weather, domain=BuiltEnvInterface, range=Optional[Union[str, "SampWeatherEnum"]]) + +slots.BuiltEnvInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="BuiltEnvInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_sample_link, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.BuiltEnvInterface_season = Slot(uri=MIXS['0000829'], name="BuiltEnvInterface_season", curie=MIXS.curie('0000829'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_season, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.BuiltEnvInterface_season_use = Slot(uri=MIXS['0000830'], name="BuiltEnvInterface_season_use", curie=MIXS.curie('0000830'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_season_use, domain=BuiltEnvInterface, range=Optional[Union[str, "SeasonUseEnum"]]) + +slots.BuiltEnvInterface_shad_dev_water_mold = Slot(uri=MIXS['0000834'], name="BuiltEnvInterface_shad_dev_water_mold", curie=MIXS.curie('0000834'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_shad_dev_water_mold, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_shading_device_cond = Slot(uri=MIXS['0000831'], name="BuiltEnvInterface_shading_device_cond", curie=MIXS.curie('0000831'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_shading_device_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "ShadingDeviceCondEnum"]]) + +slots.BuiltEnvInterface_shading_device_loc = Slot(uri=MIXS['0000832'], name="BuiltEnvInterface_shading_device_loc", curie=MIXS.curie('0000832'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_shading_device_loc, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_shading_device_mat = Slot(uri=MIXS['0000245'], name="BuiltEnvInterface_shading_device_mat", curie=MIXS.curie('0000245'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_shading_device_mat, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_shading_device_type = Slot(uri=MIXS['0000835'], name="BuiltEnvInterface_shading_device_type", curie=MIXS.curie('0000835'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_shading_device_type, domain=BuiltEnvInterface, range=Optional[Union[str, "ShadingDeviceTypeEnum"]]) + +slots.BuiltEnvInterface_size_frac = Slot(uri=MIXS['0000017'], name="BuiltEnvInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_size_frac, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_space_typ_state = Slot(uri=MIXS['0000770'], name="BuiltEnvInterface_space_typ_state", curie=MIXS.curie('0000770'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_space_typ_state, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_specific = Slot(uri=MIXS['0000836'], name="BuiltEnvInterface_specific", curie=MIXS.curie('0000836'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_specific, domain=BuiltEnvInterface, range=Optional[Union[str, "SpecificEnum"]]) + +slots.BuiltEnvInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="BuiltEnvInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_specific_ecosystem, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_specific_humidity = Slot(uri=MIXS['0000214'], name="BuiltEnvInterface_specific_humidity", curie=MIXS.curie('0000214'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_specific_humidity, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_substructure_type = Slot(uri=MIXS['0000767'], name="BuiltEnvInterface_substructure_type", curie=MIXS.curie('0000767'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_substructure_type, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "SubstructureTypeEnum"], List[Union[str, "SubstructureTypeEnum"]]]]) + +slots.BuiltEnvInterface_surf_air_cont = Slot(uri=MIXS['0000759'], name="BuiltEnvInterface_surf_air_cont", curie=MIXS.curie('0000759'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_air_cont, domain=BuiltEnvInterface, range=Optional[Union[Union[str, "SurfAirContEnum"], List[Union[str, "SurfAirContEnum"]]]]) + +slots.BuiltEnvInterface_surf_humidity = Slot(uri=MIXS['0000123'], name="BuiltEnvInterface_surf_humidity", curie=MIXS.curie('0000123'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_humidity, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_surf_material = Slot(uri=MIXS['0000758'], name="BuiltEnvInterface_surf_material", curie=MIXS.curie('0000758'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_material, domain=BuiltEnvInterface, range=Optional[Union[str, "SurfMaterialEnum"]]) + +slots.BuiltEnvInterface_surf_moisture = Slot(uri=MIXS['0000128'], name="BuiltEnvInterface_surf_moisture", curie=MIXS.curie('0000128'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_moisture, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_surf_moisture_ph = Slot(uri=MIXS['0000760'], name="BuiltEnvInterface_surf_moisture_ph", curie=MIXS.curie('0000760'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_moisture_ph, domain=BuiltEnvInterface, range=Optional[float]) + +slots.BuiltEnvInterface_surf_temp = Slot(uri=MIXS['0000125'], name="BuiltEnvInterface_surf_temp", curie=MIXS.curie('0000125'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_surf_temp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_temp = Slot(uri=MIXS['0000113'], name="BuiltEnvInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_temp, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_temp_out = Slot(uri=MIXS['0000197'], name="BuiltEnvInterface_temp_out", curie=MIXS.curie('0000197'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_temp_out, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_train_line = Slot(uri=MIXS['0000837'], name="BuiltEnvInterface_train_line", curie=MIXS.curie('0000837'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_train_line, domain=BuiltEnvInterface, range=Optional[Union[str, "TrainLineEnum"]]) + +slots.BuiltEnvInterface_train_stat_loc = Slot(uri=MIXS['0000838'], name="BuiltEnvInterface_train_stat_loc", curie=MIXS.curie('0000838'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_train_stat_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "TrainStatLocEnum"]]) + +slots.BuiltEnvInterface_train_stop_loc = Slot(uri=MIXS['0000839'], name="BuiltEnvInterface_train_stop_loc", curie=MIXS.curie('0000839'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_train_stop_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "TrainStopLocEnum"]]) + +slots.BuiltEnvInterface_typ_occup_density = Slot(uri=MIXS['0000771'], name="BuiltEnvInterface_typ_occup_density", curie=MIXS.curie('0000771'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_typ_occup_density, domain=BuiltEnvInterface, range=Optional[float]) + +slots.BuiltEnvInterface_ventilation_type = Slot(uri=MIXS['0000756'], name="BuiltEnvInterface_ventilation_type", curie=MIXS.curie('0000756'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_ventilation_type, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_vis_media = Slot(uri=MIXS['0000840'], name="BuiltEnvInterface_vis_media", curie=MIXS.curie('0000840'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_vis_media, domain=BuiltEnvInterface, range=Optional[Union[str, "VisMediaEnum"]]) + +slots.BuiltEnvInterface_wall_area = Slot(uri=MIXS['0000198'], name="BuiltEnvInterface_wall_area", curie=MIXS.curie('0000198'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_area, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_wall_const_type = Slot(uri=MIXS['0000841'], name="BuiltEnvInterface_wall_const_type", curie=MIXS.curie('0000841'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_const_type, domain=BuiltEnvInterface, range=Optional[Union[str, "WallConstTypeEnum"]]) + +slots.BuiltEnvInterface_wall_finish_mat = Slot(uri=MIXS['0000842'], name="BuiltEnvInterface_wall_finish_mat", curie=MIXS.curie('0000842'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_finish_mat, domain=BuiltEnvInterface, range=Optional[Union[str, "WallFinishMatEnum"]]) + +slots.BuiltEnvInterface_wall_height = Slot(uri=MIXS['0000221'], name="BuiltEnvInterface_wall_height", curie=MIXS.curie('0000221'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_height, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_wall_loc = Slot(uri=MIXS['0000843'], name="BuiltEnvInterface_wall_loc", curie=MIXS.curie('0000843'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "WallLocEnum"]]) + +slots.BuiltEnvInterface_wall_surf_treatment = Slot(uri=MIXS['0000845'], name="BuiltEnvInterface_wall_surf_treatment", curie=MIXS.curie('0000845'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_surf_treatment, domain=BuiltEnvInterface, range=Optional[Union[str, "WallSurfTreatmentEnum"]]) + +slots.BuiltEnvInterface_wall_texture = Slot(uri=MIXS['0000846'], name="BuiltEnvInterface_wall_texture", curie=MIXS.curie('0000846'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_texture, domain=BuiltEnvInterface, range=Optional[Union[str, "WallTextureEnum"]]) + +slots.BuiltEnvInterface_wall_thermal_mass = Slot(uri=MIXS['0000222'], name="BuiltEnvInterface_wall_thermal_mass", curie=MIXS.curie('0000222'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_thermal_mass, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_wall_water_mold = Slot(uri=MIXS['0000844'], name="BuiltEnvInterface_wall_water_mold", curie=MIXS.curie('0000844'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_wall_water_mold, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_water_feat_size = Slot(uri=MIXS['0000223'], name="BuiltEnvInterface_water_feat_size", curie=MIXS.curie('0000223'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_water_feat_size, domain=BuiltEnvInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.BuiltEnvInterface_water_feat_type = Slot(uri=MIXS['0000847'], name="BuiltEnvInterface_water_feat_type", curie=MIXS.curie('0000847'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_water_feat_type, domain=BuiltEnvInterface, range=Optional[Union[str, "WaterFeatTypeEnum"]]) + +slots.BuiltEnvInterface_weekday = Slot(uri=MIXS['0000848'], name="BuiltEnvInterface_weekday", curie=MIXS.curie('0000848'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_weekday, domain=BuiltEnvInterface, range=Optional[Union[str, "WeekdayEnum"]]) + +slots.BuiltEnvInterface_window_cond = Slot(uri=MIXS['0000849'], name="BuiltEnvInterface_window_cond", curie=MIXS.curie('0000849'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_cond, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowCondEnum"]]) + +slots.BuiltEnvInterface_window_cover = Slot(uri=MIXS['0000850'], name="BuiltEnvInterface_window_cover", curie=MIXS.curie('0000850'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_cover, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowCoverEnum"]]) + +slots.BuiltEnvInterface_window_horiz_pos = Slot(uri=MIXS['0000851'], name="BuiltEnvInterface_window_horiz_pos", curie=MIXS.curie('0000851'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_horiz_pos, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowHorizPosEnum"]]) + +slots.BuiltEnvInterface_window_loc = Slot(uri=MIXS['0000852'], name="BuiltEnvInterface_window_loc", curie=MIXS.curie('0000852'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_loc, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowLocEnum"]]) + +slots.BuiltEnvInterface_window_mat = Slot(uri=MIXS['0000853'], name="BuiltEnvInterface_window_mat", curie=MIXS.curie('0000853'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_mat, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowMatEnum"]]) + +slots.BuiltEnvInterface_window_open_freq = Slot(uri=MIXS['0000246'], name="BuiltEnvInterface_window_open_freq", curie=MIXS.curie('0000246'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_open_freq, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_window_size = Slot(uri=MIXS['0000224'], name="BuiltEnvInterface_window_size", curie=MIXS.curie('0000224'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_size, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_window_status = Slot(uri=MIXS['0000855'], name="BuiltEnvInterface_window_status", curie=MIXS.curie('0000855'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_status, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_window_type = Slot(uri=MIXS['0000856'], name="BuiltEnvInterface_window_type", curie=MIXS.curie('0000856'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_type, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowTypeEnum"]]) + +slots.BuiltEnvInterface_window_vert_pos = Slot(uri=MIXS['0000857'], name="BuiltEnvInterface_window_vert_pos", curie=MIXS.curie('0000857'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_vert_pos, domain=BuiltEnvInterface, range=Optional[Union[str, "WindowVertPosEnum"]]) + +slots.BuiltEnvInterface_window_water_mold = Slot(uri=MIXS['0000854'], name="BuiltEnvInterface_window_water_mold", curie=MIXS.curie('0000854'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_window_water_mold, domain=BuiltEnvInterface, range=Optional[str]) + +slots.BuiltEnvInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="BuiltEnvInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.BuiltEnvInterface_oxy_stat_samp, domain=BuiltEnvInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.EmslInterface_emsl_store_temp = Slot(uri=NMDC_YAML['nmdc/emsl_store_temp'], name="EmslInterface_emsl_store_temp", curie=NMDC_YAML.curie('nmdc/emsl_store_temp'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_emsl_store_temp, domain=EmslInterface, range=float) + +slots.EmslInterface_project_id = Slot(uri=NMDC_YAML['nmdc/project_id'], name="EmslInterface_project_id", curie=NMDC_YAML.curie('nmdc/project_id'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_project_id, domain=EmslInterface, range=str) + +slots.EmslInterface_replicate_number = Slot(uri=NMDC_YAML['nmdc/replicate_number'], name="EmslInterface_replicate_number", curie=NMDC_YAML.curie('nmdc/replicate_number'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_replicate_number, domain=EmslInterface, range=Optional[int]) + +slots.EmslInterface_sample_shipped = Slot(uri=NMDC_YAML['nmdc/sample_shipped'], name="EmslInterface_sample_shipped", curie=NMDC_YAML.curie('nmdc/sample_shipped'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_sample_shipped, domain=EmslInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.EmslInterface_sample_type = Slot(uri=NMDC_YAML['nmdc/sample_type'], name="EmslInterface_sample_type", curie=NMDC_YAML.curie('nmdc/sample_type'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_sample_type, domain=EmslInterface, range=Union[str, "SampleTypeEnum"]) + +slots.EmslInterface_technical_reps = Slot(uri=NMDC_YAML['nmdc/technical_reps'], name="EmslInterface_technical_reps", curie=NMDC_YAML.curie('nmdc/technical_reps'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_technical_reps, domain=EmslInterface, range=Optional[int]) + +slots.EmslInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="EmslInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.EmslInterface_oxy_stat_samp, domain=EmslInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.HcrCoresInterface_additional_info = Slot(uri=MIXS['0000300'], name="HcrCoresInterface_additional_info", curie=MIXS.curie('0000300'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_additional_info, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_alkalinity = Slot(uri=MIXS['0000421'], name="HcrCoresInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_alkalinity, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_alkalinity_method = Slot(uri=MIXS['0000298'], name="HcrCoresInterface_alkalinity_method", curie=MIXS.curie('0000298'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_alkalinity_method, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_ammonium = Slot(uri=MIXS['0000427'], name="HcrCoresInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ammonium, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_api = Slot(uri=MIXS['0000157'], name="HcrCoresInterface_api", curie=MIXS.curie('0000157'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_api, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_aromatics_pc = Slot(uri=MIXS['0000133'], name="HcrCoresInterface_aromatics_pc", curie=MIXS.curie('0000133'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_aromatics_pc, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrCoresInterface_asphaltenes_pc = Slot(uri=MIXS['0000135'], name="HcrCoresInterface_asphaltenes_pc", curie=MIXS.curie('0000135'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_asphaltenes_pc, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrCoresInterface_basin = Slot(uri=MIXS['0000290'], name="HcrCoresInterface_basin", curie=MIXS.curie('0000290'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_basin, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_benzene = Slot(uri=MIXS['0000153'], name="HcrCoresInterface_benzene", curie=MIXS.curie('0000153'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_benzene, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_calcium = Slot(uri=MIXS['0000432'], name="HcrCoresInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_calcium, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_chem_administration = Slot(uri=MIXS['0000751'], name="HcrCoresInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_chem_administration, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.HcrCoresInterface_chloride = Slot(uri=MIXS['0000429'], name="HcrCoresInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_chloride, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_collection_date = Slot(uri=MIXS['0000011'], name="HcrCoresInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_collection_date, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.HcrCoresInterface_density = Slot(uri=MIXS['0000435'], name="HcrCoresInterface_density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_density, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_depos_env = Slot(uri=MIXS['0000992'], name="HcrCoresInterface_depos_env", curie=MIXS.curie('0000992'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_depos_env, domain=HcrCoresInterface, range=Optional[Union[str, "DeposEnvEnum"]]) + +slots.HcrCoresInterface_depth = Slot(uri=MIXS['0000018'], name="HcrCoresInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_depth, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.HcrCoresInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="HcrCoresInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_carb_dioxide, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="HcrCoresInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_inorg_carb, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_diss_inorg_phosp = Slot(uri=MIXS['0000106'], name="HcrCoresInterface_diss_inorg_phosp", curie=MIXS.curie('0000106'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_inorg_phosp, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_diss_iron = Slot(uri=MIXS['0000139'], name="HcrCoresInterface_diss_iron", curie=MIXS.curie('0000139'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_iron, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_diss_org_carb = Slot(uri=MIXS['0000433'], name="HcrCoresInterface_diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_org_carb, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_diss_oxygen_fluid = Slot(uri=MIXS['0000438'], name="HcrCoresInterface_diss_oxygen_fluid", curie=MIXS.curie('0000438'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_diss_oxygen_fluid, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="HcrCoresInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ecosystem, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="HcrCoresInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ecosystem_category, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="HcrCoresInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ecosystem_subtype, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="HcrCoresInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ecosystem_type, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_elev = Slot(uri=MIXS['0000093'], name="HcrCoresInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_elev, domain=HcrCoresInterface, range=float) + +slots.HcrCoresInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="HcrCoresInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_env_broad_scale, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrCoresInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="HcrCoresInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_env_local_scale, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrCoresInterface_env_medium = Slot(uri=MIXS['0000014'], name="HcrCoresInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_env_medium, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrCoresInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="HcrCoresInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_env_package, domain=HcrCoresInterface, range=str) + +slots.HcrCoresInterface_ethylbenzene = Slot(uri=MIXS['0000155'], name="HcrCoresInterface_ethylbenzene", curie=MIXS.curie('0000155'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ethylbenzene, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="HcrCoresInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_experimental_factor, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_field = Slot(uri=MIXS['0000291'], name="HcrCoresInterface_field", curie=MIXS.curie('0000291'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_field, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="HcrCoresInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_geo_loc_name, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.HcrCoresInterface_hc_produced = Slot(uri=MIXS['0000989'], name="HcrCoresInterface_hc_produced", curie=MIXS.curie('0000989'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hc_produced, domain=HcrCoresInterface, range=Optional[Union[str, "HcProducedEnum"]]) + +slots.HcrCoresInterface_hcr = Slot(uri=MIXS['0000988'], name="HcrCoresInterface_hcr", curie=MIXS.curie('0000988'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hcr, domain=HcrCoresInterface, range=Optional[Union[str, "HcrEnum"]]) + +slots.HcrCoresInterface_hcr_fw_salinity = Slot(uri=MIXS['0000406'], name="HcrCoresInterface_hcr_fw_salinity", curie=MIXS.curie('0000406'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hcr_fw_salinity, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_hcr_geol_age = Slot(uri=MIXS['0000993'], name="HcrCoresInterface_hcr_geol_age", curie=MIXS.curie('0000993'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hcr_geol_age, domain=HcrCoresInterface, range=Optional[Union[str, "HcrGeolAgeEnum"]]) + +slots.HcrCoresInterface_hcr_pressure = Slot(uri=MIXS['0000395'], name="HcrCoresInterface_hcr_pressure", curie=MIXS.curie('0000395'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hcr_pressure, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_hcr_temp = Slot(uri=MIXS['0000393'], name="HcrCoresInterface_hcr_temp", curie=MIXS.curie('0000393'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_hcr_temp, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="HcrCoresInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_horizon_meth, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_lat_lon = Slot(uri=MIXS['0000009'], name="HcrCoresInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_lat_lon, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.HcrCoresInterface_lithology = Slot(uri=MIXS['0000990'], name="HcrCoresInterface_lithology", curie=MIXS.curie('0000990'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_lithology, domain=HcrCoresInterface, range=Optional[Union[str, "LithologyEnum"]]) + +slots.HcrCoresInterface_magnesium = Slot(uri=MIXS['0000431'], name="HcrCoresInterface_magnesium", curie=MIXS.curie('0000431'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_magnesium, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_misc_param = Slot(uri=MIXS['0000752'], name="HcrCoresInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_misc_param, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.HcrCoresInterface_nitrate = Slot(uri=MIXS['0000425'], name="HcrCoresInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_nitrate, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_nitrite = Slot(uri=MIXS['0000426'], name="HcrCoresInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_nitrite, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_org_count_qpcr_info = Slot(uri=MIXS['0000099'], name="HcrCoresInterface_org_count_qpcr_info", curie=MIXS.curie('0000099'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_org_count_qpcr_info, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_organism_count = Slot(uri=MIXS['0000103'], name="HcrCoresInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_organism_count, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.HcrCoresInterface_owc_tvdss = Slot(uri=MIXS['0000405'], name="HcrCoresInterface_owc_tvdss", curie=MIXS.curie('0000405'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_owc_tvdss, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="HcrCoresInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_oxy_stat_samp, domain=HcrCoresInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.HcrCoresInterface_permeability = Slot(uri=MIXS['0000404'], name="HcrCoresInterface_permeability", curie=MIXS.curie('0000404'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_permeability, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_ph = Slot(uri=MIXS['0001001'], name="HcrCoresInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ph, domain=HcrCoresInterface, range=Optional[float]) + +slots.HcrCoresInterface_ph_meth = Slot(uri=MIXS['0001106'], name="HcrCoresInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_ph_meth, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_porosity = Slot(uri=MIXS['0000211'], name="HcrCoresInterface_porosity", curie=MIXS.curie('0000211'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_porosity, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_potassium = Slot(uri=MIXS['0000430'], name="HcrCoresInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_potassium, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_pour_point = Slot(uri=MIXS['0000127'], name="HcrCoresInterface_pour_point", curie=MIXS.curie('0000127'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_pour_point, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_pressure = Slot(uri=MIXS['0000412'], name="HcrCoresInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_pressure, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_reservoir = Slot(uri=MIXS['0000303'], name="HcrCoresInterface_reservoir", curie=MIXS.curie('0000303'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_reservoir, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_resins_pc = Slot(uri=MIXS['0000134'], name="HcrCoresInterface_resins_pc", curie=MIXS.curie('0000134'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_resins_pc, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrCoresInterface_salinity = Slot(uri=MIXS['0000183'], name="HcrCoresInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_salinity, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="HcrCoresInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_collec_device, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="HcrCoresInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_collec_method, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="HcrCoresInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_mat_process, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_md = Slot(uri=MIXS['0000413'], name="HcrCoresInterface_samp_md", curie=MIXS.curie('0000413'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_md, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_samp_size = Slot(uri=MIXS['0000001'], name="HcrCoresInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_size, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.HcrCoresInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="HcrCoresInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_store_dur, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="HcrCoresInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_store_loc, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="HcrCoresInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_store_temp, domain=HcrCoresInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_samp_subtype = Slot(uri=MIXS['0000999'], name="HcrCoresInterface_samp_subtype", curie=MIXS.curie('0000999'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_subtype, domain=HcrCoresInterface, range=Optional[Union[str, "SampSubtypeEnum"]]) + +slots.HcrCoresInterface_samp_transport_cond = Slot(uri=MIXS['0000410'], name="HcrCoresInterface_samp_transport_cond", curie=MIXS.curie('0000410'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_transport_cond, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_tvdss = Slot(uri=MIXS['0000409'], name="HcrCoresInterface_samp_tvdss", curie=MIXS.curie('0000409'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_tvdss, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_samp_type = Slot(uri=MIXS['0000998'], name="HcrCoresInterface_samp_type", curie=MIXS.curie('0000998'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_type, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrCoresInterface_samp_well_name = Slot(uri=MIXS['0000296'], name="HcrCoresInterface_samp_well_name", curie=MIXS.curie('0000296'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_samp_well_name, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="HcrCoresInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sample_link, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.HcrCoresInterface_saturates_pc = Slot(uri=MIXS['0000131'], name="HcrCoresInterface_saturates_pc", curie=MIXS.curie('0000131'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_saturates_pc, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrCoresInterface_size_frac = Slot(uri=MIXS['0000017'], name="HcrCoresInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_size_frac, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_sodium = Slot(uri=MIXS['0000428'], name="HcrCoresInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sodium, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="HcrCoresInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_specific_ecosystem, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_sr_dep_env = Slot(uri=MIXS['0000996'], name="HcrCoresInterface_sr_dep_env", curie=MIXS.curie('0000996'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sr_dep_env, domain=HcrCoresInterface, range=Optional[Union[str, "SrDepEnvEnum"]]) + +slots.HcrCoresInterface_sr_geol_age = Slot(uri=MIXS['0000997'], name="HcrCoresInterface_sr_geol_age", curie=MIXS.curie('0000997'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sr_geol_age, domain=HcrCoresInterface, range=Optional[Union[str, "SrGeolAgeEnum"]]) + +slots.HcrCoresInterface_sr_kerog_type = Slot(uri=MIXS['0000994'], name="HcrCoresInterface_sr_kerog_type", curie=MIXS.curie('0000994'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sr_kerog_type, domain=HcrCoresInterface, range=Optional[Union[str, "SrKerogTypeEnum"]]) + +slots.HcrCoresInterface_sr_lithology = Slot(uri=MIXS['0000995'], name="HcrCoresInterface_sr_lithology", curie=MIXS.curie('0000995'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sr_lithology, domain=HcrCoresInterface, range=Optional[Union[str, "SrLithologyEnum"]]) + +slots.HcrCoresInterface_sulfate = Slot(uri=MIXS['0000423'], name="HcrCoresInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sulfate, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_sulfate_fw = Slot(uri=MIXS['0000407'], name="HcrCoresInterface_sulfate_fw", curie=MIXS.curie('0000407'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sulfate_fw, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_sulfide = Slot(uri=MIXS['0000424'], name="HcrCoresInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_sulfide, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_suspend_solids = Slot(uri=MIXS['0000150'], name="HcrCoresInterface_suspend_solids", curie=MIXS.curie('0000150'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_suspend_solids, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.HcrCoresInterface_tan = Slot(uri=MIXS['0000120'], name="HcrCoresInterface_tan", curie=MIXS.curie('0000120'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tan, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_temp = Slot(uri=MIXS['0000113'], name="HcrCoresInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_temp, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_toluene = Slot(uri=MIXS['0000154'], name="HcrCoresInterface_toluene", curie=MIXS.curie('0000154'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_toluene, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tot_iron = Slot(uri=MIXS['0000105'], name="HcrCoresInterface_tot_iron", curie=MIXS.curie('0000105'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tot_iron, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tot_nitro = Slot(uri=MIXS['0000102'], name="HcrCoresInterface_tot_nitro", curie=MIXS.curie('0000102'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tot_nitro, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tot_phosp = Slot(uri=MIXS['0000117'], name="HcrCoresInterface_tot_phosp", curie=MIXS.curie('0000117'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tot_phosp, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tot_sulfur = Slot(uri=MIXS['0000419'], name="HcrCoresInterface_tot_sulfur", curie=MIXS.curie('0000419'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tot_sulfur, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tvdss_of_hcr_press = Slot(uri=MIXS['0000397'], name="HcrCoresInterface_tvdss_of_hcr_press", curie=MIXS.curie('0000397'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tvdss_of_hcr_press, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_tvdss_of_hcr_temp = Slot(uri=MIXS['0000394'], name="HcrCoresInterface_tvdss_of_hcr_temp", curie=MIXS.curie('0000394'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_tvdss_of_hcr_temp, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_vfa = Slot(uri=MIXS['0000152'], name="HcrCoresInterface_vfa", curie=MIXS.curie('0000152'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_vfa, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_vfa_fw = Slot(uri=MIXS['0000408'], name="HcrCoresInterface_vfa_fw", curie=MIXS.curie('0000408'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_vfa_fw, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrCoresInterface_viscosity = Slot(uri=MIXS['0000126'], name="HcrCoresInterface_viscosity", curie=MIXS.curie('0000126'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_viscosity, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_win = Slot(uri=MIXS['0000297'], name="HcrCoresInterface_win", curie=MIXS.curie('0000297'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_win, domain=HcrCoresInterface, range=Optional[str]) + +slots.HcrCoresInterface_xylene = Slot(uri=MIXS['0000156'], name="HcrCoresInterface_xylene", curie=MIXS.curie('0000156'), + model_uri=NMDC_SUB_SCHEMA.HcrCoresInterface_xylene, domain=HcrCoresInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_add_recov_method = Slot(uri=MIXS['0001009'], name="HcrFluidsSwabsInterface_add_recov_method", curie=MIXS.curie('0001009'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_add_recov_method, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_additional_info = Slot(uri=MIXS['0000300'], name="HcrFluidsSwabsInterface_additional_info", curie=MIXS.curie('0000300'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_additional_info, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_alkalinity = Slot(uri=MIXS['0000421'], name="HcrFluidsSwabsInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_alkalinity, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_alkalinity_method = Slot(uri=MIXS['0000298'], name="HcrFluidsSwabsInterface_alkalinity_method", curie=MIXS.curie('0000298'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_alkalinity_method, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_ammonium = Slot(uri=MIXS['0000427'], name="HcrFluidsSwabsInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ammonium, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_api = Slot(uri=MIXS['0000157'], name="HcrFluidsSwabsInterface_api", curie=MIXS.curie('0000157'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_api, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_aromatics_pc = Slot(uri=MIXS['0000133'], name="HcrFluidsSwabsInterface_aromatics_pc", curie=MIXS.curie('0000133'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_aromatics_pc, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrFluidsSwabsInterface_asphaltenes_pc = Slot(uri=MIXS['0000135'], name="HcrFluidsSwabsInterface_asphaltenes_pc", curie=MIXS.curie('0000135'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_asphaltenes_pc, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrFluidsSwabsInterface_basin = Slot(uri=MIXS['0000290'], name="HcrFluidsSwabsInterface_basin", curie=MIXS.curie('0000290'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_basin, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_benzene = Slot(uri=MIXS['0000153'], name="HcrFluidsSwabsInterface_benzene", curie=MIXS.curie('0000153'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_benzene, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_biocide = Slot(uri=MIXS['0001011'], name="HcrFluidsSwabsInterface_biocide", curie=MIXS.curie('0001011'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_biocide, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_biocide_admin_method = Slot(uri=MIXS['0000456'], name="HcrFluidsSwabsInterface_biocide_admin_method", curie=MIXS.curie('0000456'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_biocide_admin_method, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_calcium = Slot(uri=MIXS['0000432'], name="HcrFluidsSwabsInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_calcium, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_chem_administration = Slot(uri=MIXS['0000751'], name="HcrFluidsSwabsInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_chem_administration, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.HcrFluidsSwabsInterface_chem_treat_method = Slot(uri=MIXS['0000457'], name="HcrFluidsSwabsInterface_chem_treat_method", curie=MIXS.curie('0000457'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_chem_treat_method, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_chem_treatment = Slot(uri=MIXS['0001012'], name="HcrFluidsSwabsInterface_chem_treatment", curie=MIXS.curie('0001012'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_chem_treatment, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_chloride = Slot(uri=MIXS['0000429'], name="HcrFluidsSwabsInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_chloride, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_collection_date = Slot(uri=MIXS['0000011'], name="HcrFluidsSwabsInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_collection_date, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.HcrFluidsSwabsInterface_density = Slot(uri=MIXS['0000435'], name="HcrFluidsSwabsInterface_density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_density, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_depos_env = Slot(uri=MIXS['0000992'], name="HcrFluidsSwabsInterface_depos_env", curie=MIXS.curie('0000992'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_depos_env, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "DeposEnvEnum"]]) + +slots.HcrFluidsSwabsInterface_depth = Slot(uri=MIXS['0000018'], name="HcrFluidsSwabsInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_depth, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.HcrFluidsSwabsInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="HcrFluidsSwabsInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_carb_dioxide, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="HcrFluidsSwabsInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_inorg_carb, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_diss_inorg_phosp = Slot(uri=MIXS['0000106'], name="HcrFluidsSwabsInterface_diss_inorg_phosp", curie=MIXS.curie('0000106'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_inorg_phosp, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_diss_iron = Slot(uri=MIXS['0000139'], name="HcrFluidsSwabsInterface_diss_iron", curie=MIXS.curie('0000139'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_iron, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_diss_org_carb = Slot(uri=MIXS['0000433'], name="HcrFluidsSwabsInterface_diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_org_carb, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_diss_oxygen_fluid = Slot(uri=MIXS['0000438'], name="HcrFluidsSwabsInterface_diss_oxygen_fluid", curie=MIXS.curie('0000438'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_diss_oxygen_fluid, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="HcrFluidsSwabsInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ecosystem, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="HcrFluidsSwabsInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ecosystem_category, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="HcrFluidsSwabsInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ecosystem_subtype, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="HcrFluidsSwabsInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ecosystem_type, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_elev = Slot(uri=MIXS['0000093'], name="HcrFluidsSwabsInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_elev, domain=HcrFluidsSwabsInterface, range=float) + +slots.HcrFluidsSwabsInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="HcrFluidsSwabsInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_env_broad_scale, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrFluidsSwabsInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="HcrFluidsSwabsInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_env_local_scale, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrFluidsSwabsInterface_env_medium = Slot(uri=MIXS['0000014'], name="HcrFluidsSwabsInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_env_medium, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrFluidsSwabsInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="HcrFluidsSwabsInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_env_package, domain=HcrFluidsSwabsInterface, range=str) + +slots.HcrFluidsSwabsInterface_ethylbenzene = Slot(uri=MIXS['0000155'], name="HcrFluidsSwabsInterface_ethylbenzene", curie=MIXS.curie('0000155'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ethylbenzene, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="HcrFluidsSwabsInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_experimental_factor, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_field = Slot(uri=MIXS['0000291'], name="HcrFluidsSwabsInterface_field", curie=MIXS.curie('0000291'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_field, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="HcrFluidsSwabsInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_geo_loc_name, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.HcrFluidsSwabsInterface_hc_produced = Slot(uri=MIXS['0000989'], name="HcrFluidsSwabsInterface_hc_produced", curie=MIXS.curie('0000989'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hc_produced, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "HcProducedEnum"]]) + +slots.HcrFluidsSwabsInterface_hcr = Slot(uri=MIXS['0000988'], name="HcrFluidsSwabsInterface_hcr", curie=MIXS.curie('0000988'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hcr, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "HcrEnum"]]) + +slots.HcrFluidsSwabsInterface_hcr_fw_salinity = Slot(uri=MIXS['0000406'], name="HcrFluidsSwabsInterface_hcr_fw_salinity", curie=MIXS.curie('0000406'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hcr_fw_salinity, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_hcr_geol_age = Slot(uri=MIXS['0000993'], name="HcrFluidsSwabsInterface_hcr_geol_age", curie=MIXS.curie('0000993'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hcr_geol_age, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "HcrGeolAgeEnum"]]) + +slots.HcrFluidsSwabsInterface_hcr_pressure = Slot(uri=MIXS['0000395'], name="HcrFluidsSwabsInterface_hcr_pressure", curie=MIXS.curie('0000395'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hcr_pressure, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_hcr_temp = Slot(uri=MIXS['0000393'], name="HcrFluidsSwabsInterface_hcr_temp", curie=MIXS.curie('0000393'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_hcr_temp, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="HcrFluidsSwabsInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_horizon_meth, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_iw_bt_date_well = Slot(uri=MIXS['0001010'], name="HcrFluidsSwabsInterface_iw_bt_date_well", curie=MIXS.curie('0001010'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_iw_bt_date_well, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_iwf = Slot(uri=MIXS['0000455'], name="HcrFluidsSwabsInterface_iwf", curie=MIXS.curie('0000455'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_iwf, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_lat_lon = Slot(uri=MIXS['0000009'], name="HcrFluidsSwabsInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_lat_lon, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.HcrFluidsSwabsInterface_lithology = Slot(uri=MIXS['0000990'], name="HcrFluidsSwabsInterface_lithology", curie=MIXS.curie('0000990'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_lithology, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "LithologyEnum"]]) + +slots.HcrFluidsSwabsInterface_magnesium = Slot(uri=MIXS['0000431'], name="HcrFluidsSwabsInterface_magnesium", curie=MIXS.curie('0000431'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_magnesium, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_misc_param = Slot(uri=MIXS['0000752'], name="HcrFluidsSwabsInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_misc_param, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.HcrFluidsSwabsInterface_nitrate = Slot(uri=MIXS['0000425'], name="HcrFluidsSwabsInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_nitrate, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_nitrite = Slot(uri=MIXS['0000426'], name="HcrFluidsSwabsInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_nitrite, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_org_count_qpcr_info = Slot(uri=MIXS['0000099'], name="HcrFluidsSwabsInterface_org_count_qpcr_info", curie=MIXS.curie('0000099'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_org_count_qpcr_info, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_organism_count = Slot(uri=MIXS['0000103'], name="HcrFluidsSwabsInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_organism_count, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.HcrFluidsSwabsInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="HcrFluidsSwabsInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_oxy_stat_samp, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.HcrFluidsSwabsInterface_ph = Slot(uri=MIXS['0001001'], name="HcrFluidsSwabsInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ph, domain=HcrFluidsSwabsInterface, range=Optional[float]) + +slots.HcrFluidsSwabsInterface_ph_meth = Slot(uri=MIXS['0001106'], name="HcrFluidsSwabsInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_ph_meth, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_potassium = Slot(uri=MIXS['0000430'], name="HcrFluidsSwabsInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_potassium, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_pour_point = Slot(uri=MIXS['0000127'], name="HcrFluidsSwabsInterface_pour_point", curie=MIXS.curie('0000127'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_pour_point, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_pressure = Slot(uri=MIXS['0000412'], name="HcrFluidsSwabsInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_pressure, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_prod_rate = Slot(uri=MIXS['0000452'], name="HcrFluidsSwabsInterface_prod_rate", curie=MIXS.curie('0000452'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_prod_rate, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_prod_start_date = Slot(uri=MIXS['0001008'], name="HcrFluidsSwabsInterface_prod_start_date", curie=MIXS.curie('0001008'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_prod_start_date, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_reservoir = Slot(uri=MIXS['0000303'], name="HcrFluidsSwabsInterface_reservoir", curie=MIXS.curie('0000303'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_reservoir, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_resins_pc = Slot(uri=MIXS['0000134'], name="HcrFluidsSwabsInterface_resins_pc", curie=MIXS.curie('0000134'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_resins_pc, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrFluidsSwabsInterface_salinity = Slot(uri=MIXS['0000183'], name="HcrFluidsSwabsInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_salinity, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="HcrFluidsSwabsInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_collec_device, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="HcrFluidsSwabsInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_collec_method, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_collect_point = Slot(uri=MIXS['0001015'], name="HcrFluidsSwabsInterface_samp_collect_point", curie=MIXS.curie('0001015'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_collect_point, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "SampCollectPointEnum"]]) + +slots.HcrFluidsSwabsInterface_samp_loc_corr_rate = Slot(uri=MIXS['0000136'], name="HcrFluidsSwabsInterface_samp_loc_corr_rate", curie=MIXS.curie('0000136'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_loc_corr_rate, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="HcrFluidsSwabsInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_mat_process, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_preserv = Slot(uri=MIXS['0000463'], name="HcrFluidsSwabsInterface_samp_preserv", curie=MIXS.curie('0000463'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_preserv, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrFluidsSwabsInterface_samp_size = Slot(uri=MIXS['0000001'], name="HcrFluidsSwabsInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_size, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.HcrFluidsSwabsInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="HcrFluidsSwabsInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_store_dur, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="HcrFluidsSwabsInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_store_loc, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="HcrFluidsSwabsInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_store_temp, domain=HcrFluidsSwabsInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_samp_subtype = Slot(uri=MIXS['0000999'], name="HcrFluidsSwabsInterface_samp_subtype", curie=MIXS.curie('0000999'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_subtype, domain=HcrFluidsSwabsInterface, range=Optional[Union[str, "SampSubtypeEnum"]]) + +slots.HcrFluidsSwabsInterface_samp_transport_cond = Slot(uri=MIXS['0000410'], name="HcrFluidsSwabsInterface_samp_transport_cond", curie=MIXS.curie('0000410'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_transport_cond, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_samp_type = Slot(uri=MIXS['0000998'], name="HcrFluidsSwabsInterface_samp_type", curie=MIXS.curie('0000998'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_type, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HcrFluidsSwabsInterface_samp_well_name = Slot(uri=MIXS['0000296'], name="HcrFluidsSwabsInterface_samp_well_name", curie=MIXS.curie('0000296'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_samp_well_name, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="HcrFluidsSwabsInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_sample_link, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.HcrFluidsSwabsInterface_saturates_pc = Slot(uri=MIXS['0000131'], name="HcrFluidsSwabsInterface_saturates_pc", curie=MIXS.curie('0000131'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_saturates_pc, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.HcrFluidsSwabsInterface_size_frac = Slot(uri=MIXS['0000017'], name="HcrFluidsSwabsInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_size_frac, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_sodium = Slot(uri=MIXS['0000428'], name="HcrFluidsSwabsInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_sodium, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="HcrFluidsSwabsInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_specific_ecosystem, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_sulfate = Slot(uri=MIXS['0000423'], name="HcrFluidsSwabsInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_sulfate, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_sulfate_fw = Slot(uri=MIXS['0000407'], name="HcrFluidsSwabsInterface_sulfate_fw", curie=MIXS.curie('0000407'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_sulfate_fw, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_sulfide = Slot(uri=MIXS['0000424'], name="HcrFluidsSwabsInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_sulfide, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_suspend_solids = Slot(uri=MIXS['0000150'], name="HcrFluidsSwabsInterface_suspend_solids", curie=MIXS.curie('0000150'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_suspend_solids, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.HcrFluidsSwabsInterface_tan = Slot(uri=MIXS['0000120'], name="HcrFluidsSwabsInterface_tan", curie=MIXS.curie('0000120'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tan, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_temp = Slot(uri=MIXS['0000113'], name="HcrFluidsSwabsInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_temp, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_toluene = Slot(uri=MIXS['0000154'], name="HcrFluidsSwabsInterface_toluene", curie=MIXS.curie('0000154'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_toluene, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tot_iron = Slot(uri=MIXS['0000105'], name="HcrFluidsSwabsInterface_tot_iron", curie=MIXS.curie('0000105'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tot_iron, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tot_nitro = Slot(uri=MIXS['0000102'], name="HcrFluidsSwabsInterface_tot_nitro", curie=MIXS.curie('0000102'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tot_nitro, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tot_phosp = Slot(uri=MIXS['0000117'], name="HcrFluidsSwabsInterface_tot_phosp", curie=MIXS.curie('0000117'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tot_phosp, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tot_sulfur = Slot(uri=MIXS['0000419'], name="HcrFluidsSwabsInterface_tot_sulfur", curie=MIXS.curie('0000419'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tot_sulfur, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tvdss_of_hcr_press = Slot(uri=MIXS['0000397'], name="HcrFluidsSwabsInterface_tvdss_of_hcr_press", curie=MIXS.curie('0000397'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tvdss_of_hcr_press, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_tvdss_of_hcr_temp = Slot(uri=MIXS['0000394'], name="HcrFluidsSwabsInterface_tvdss_of_hcr_temp", curie=MIXS.curie('0000394'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_tvdss_of_hcr_temp, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_vfa = Slot(uri=MIXS['0000152'], name="HcrFluidsSwabsInterface_vfa", curie=MIXS.curie('0000152'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_vfa, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_vfa_fw = Slot(uri=MIXS['0000408'], name="HcrFluidsSwabsInterface_vfa_fw", curie=MIXS.curie('0000408'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_vfa_fw, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_viscosity = Slot(uri=MIXS['0000126'], name="HcrFluidsSwabsInterface_viscosity", curie=MIXS.curie('0000126'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_viscosity, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_water_cut = Slot(uri=MIXS['0000454'], name="HcrFluidsSwabsInterface_water_cut", curie=MIXS.curie('0000454'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_water_cut, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_water_prod_rate = Slot(uri=MIXS['0000453'], name="HcrFluidsSwabsInterface_water_prod_rate", curie=MIXS.curie('0000453'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_water_prod_rate, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HcrFluidsSwabsInterface_win = Slot(uri=MIXS['0000297'], name="HcrFluidsSwabsInterface_win", curie=MIXS.curie('0000297'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_win, domain=HcrFluidsSwabsInterface, range=Optional[str]) + +slots.HcrFluidsSwabsInterface_xylene = Slot(uri=MIXS['0000156'], name="HcrFluidsSwabsInterface_xylene", curie=MIXS.curie('0000156'), + model_uri=NMDC_SUB_SCHEMA.HcrFluidsSwabsInterface_xylene, domain=HcrFluidsSwabsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_alt = Slot(uri=MIXS['0000094'], name="HostAssociatedInterface_alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_alt, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_ances_data = Slot(uri=MIXS['0000247'], name="HostAssociatedInterface_ances_data", curie=MIXS.curie('0000247'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_ances_data, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_biol_stat = Slot(uri=MIXS['0000858'], name="HostAssociatedInterface_biol_stat", curie=MIXS.curie('0000858'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_biol_stat, domain=HostAssociatedInterface, range=Optional[Union[str, "BiolStatEnum"]]) + +slots.HostAssociatedInterface_blood_press_diast = Slot(uri=MIXS['0000258'], name="HostAssociatedInterface_blood_press_diast", curie=MIXS.curie('0000258'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_blood_press_diast, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_blood_press_syst = Slot(uri=MIXS['0000259'], name="HostAssociatedInterface_blood_press_syst", curie=MIXS.curie('0000259'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_blood_press_syst, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_chem_administration = Slot(uri=MIXS['0000751'], name="HostAssociatedInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_chem_administration, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.HostAssociatedInterface_collection_date = Slot(uri=MIXS['0000011'], name="HostAssociatedInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_collection_date, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.HostAssociatedInterface_depth = Slot(uri=MIXS['0000018'], name="HostAssociatedInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_depth, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.HostAssociatedInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="HostAssociatedInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_ecosystem, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="HostAssociatedInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_ecosystem_category, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="HostAssociatedInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_ecosystem_subtype, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="HostAssociatedInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_ecosystem_type, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_elev = Slot(uri=MIXS['0000093'], name="HostAssociatedInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_elev, domain=HostAssociatedInterface, range=float) + +slots.HostAssociatedInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="HostAssociatedInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_env_broad_scale, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="HostAssociatedInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_env_local_scale, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_env_medium = Slot(uri=MIXS['0000014'], name="HostAssociatedInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_env_medium, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="HostAssociatedInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_env_package, domain=HostAssociatedInterface, range=str) + +slots.HostAssociatedInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="HostAssociatedInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_experimental_factor, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_genetic_mod = Slot(uri=MIXS['0000859'], name="HostAssociatedInterface_genetic_mod", curie=MIXS.curie('0000859'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_genetic_mod, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="HostAssociatedInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_geo_loc_name, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.HostAssociatedInterface_gravidity = Slot(uri=MIXS['0000875'], name="HostAssociatedInterface_gravidity", curie=MIXS.curie('0000875'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_gravidity, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="HostAssociatedInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_horizon_meth, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_age = Slot(uri=MIXS['0000255'], name="HostAssociatedInterface_host_age", curie=MIXS.curie('0000255'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_age, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_host_body_habitat = Slot(uri=MIXS['0000866'], name="HostAssociatedInterface_host_body_habitat", curie=MIXS.curie('0000866'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_body_habitat, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_body_product = Slot(uri=MIXS['0000888'], name="HostAssociatedInterface_host_body_product", curie=MIXS.curie('0000888'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_body_product, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_host_body_site = Slot(uri=MIXS['0000867'], name="HostAssociatedInterface_host_body_site", curie=MIXS.curie('0000867'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_body_site, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_host_body_temp = Slot(uri=MIXS['0000274'], name="HostAssociatedInterface_host_body_temp", curie=MIXS.curie('0000274'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_body_temp, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_host_color = Slot(uri=MIXS['0000260'], name="HostAssociatedInterface_host_color", curie=MIXS.curie('0000260'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_color, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_common_name = Slot(uri=MIXS['0000248'], name="HostAssociatedInterface_host_common_name", curie=MIXS.curie('0000248'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_common_name, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_diet = Slot(uri=MIXS['0000869'], name="HostAssociatedInterface_host_diet", curie=MIXS.curie('0000869'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_diet, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_dry_mass = Slot(uri=MIXS['0000257'], name="HostAssociatedInterface_host_dry_mass", curie=MIXS.curie('0000257'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_dry_mass, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_host_family_relation = Slot(uri=MIXS['0000872'], name="HostAssociatedInterface_host_family_relation", curie=MIXS.curie('0000872'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_family_relation, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_genotype = Slot(uri=MIXS['0000365'], name="HostAssociatedInterface_host_genotype", curie=MIXS.curie('0000365'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_genotype, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_growth_cond = Slot(uri=MIXS['0000871'], name="HostAssociatedInterface_host_growth_cond", curie=MIXS.curie('0000871'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_growth_cond, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_height = Slot(uri=MIXS['0000264'], name="HostAssociatedInterface_host_height", curie=MIXS.curie('0000264'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_height, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_host_last_meal = Slot(uri=MIXS['0000870'], name="HostAssociatedInterface_host_last_meal", curie=MIXS.curie('0000870'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_last_meal, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_length = Slot(uri=MIXS['0000256'], name="HostAssociatedInterface_host_length", curie=MIXS.curie('0000256'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_length, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_host_life_stage = Slot(uri=MIXS['0000251'], name="HostAssociatedInterface_host_life_stage", curie=MIXS.curie('0000251'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_life_stage, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_phenotype = Slot(uri=MIXS['0000874'], name="HostAssociatedInterface_host_phenotype", curie=MIXS.curie('0000874'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_phenotype, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.HostAssociatedInterface_host_sex = Slot(uri=MIXS['0000811'], name="HostAssociatedInterface_host_sex", curie=MIXS.curie('0000811'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_sex, domain=HostAssociatedInterface, range=Optional[Union[str, "HostSexEnum"]]) + +slots.HostAssociatedInterface_host_shape = Slot(uri=MIXS['0000261'], name="HostAssociatedInterface_host_shape", curie=MIXS.curie('0000261'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_shape, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_subject_id = Slot(uri=MIXS['0000861'], name="HostAssociatedInterface_host_subject_id", curie=MIXS.curie('0000861'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_subject_id, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_subspecf_genlin = Slot(uri=MIXS['0001318'], name="HostAssociatedInterface_host_subspecf_genlin", curie=MIXS.curie('0001318'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_subspecf_genlin, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_substrate = Slot(uri=MIXS['0000252'], name="HostAssociatedInterface_host_substrate", curie=MIXS.curie('0000252'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_substrate, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_symbiont = Slot(uri=MIXS['0001298'], name="HostAssociatedInterface_host_symbiont", curie=MIXS.curie('0001298'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_symbiont, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_taxid = Slot(uri=MIXS['0000250'], name="HostAssociatedInterface_host_taxid", curie=MIXS.curie('0000250'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_taxid, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_host_tot_mass = Slot(uri=MIXS['0000263'], name="HostAssociatedInterface_host_tot_mass", curie=MIXS.curie('0000263'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_host_tot_mass, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_lat_lon = Slot(uri=MIXS['0000009'], name="HostAssociatedInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_lat_lon, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.HostAssociatedInterface_misc_param = Slot(uri=MIXS['0000752'], name="HostAssociatedInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_misc_param, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.HostAssociatedInterface_organism_count = Slot(uri=MIXS['0000103'], name="HostAssociatedInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_organism_count, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.HostAssociatedInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="HostAssociatedInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_oxy_stat_samp, domain=HostAssociatedInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.HostAssociatedInterface_perturbation = Slot(uri=MIXS['0000754'], name="HostAssociatedInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_perturbation, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_salinity = Slot(uri=MIXS['0000183'], name="HostAssociatedInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_salinity, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_samp_capt_status = Slot(uri=MIXS['0000860'], name="HostAssociatedInterface_samp_capt_status", curie=MIXS.curie('0000860'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_capt_status, domain=HostAssociatedInterface, range=Optional[Union[str, "SampCaptStatusEnum"]]) + +slots.HostAssociatedInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="HostAssociatedInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_collec_device, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="HostAssociatedInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_collec_method, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_samp_dis_stage = Slot(uri=MIXS['0000249'], name="HostAssociatedInterface_samp_dis_stage", curie=MIXS.curie('0000249'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_dis_stage, domain=HostAssociatedInterface, range=Optional[Union[str, "SampDisStageEnum"]]) + +slots.HostAssociatedInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="HostAssociatedInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_mat_process, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_samp_size = Slot(uri=MIXS['0000001'], name="HostAssociatedInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_size, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.HostAssociatedInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="HostAssociatedInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_store_dur, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="HostAssociatedInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_store_loc, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="HostAssociatedInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_samp_store_temp, domain=HostAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.HostAssociatedInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="HostAssociatedInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_sample_link, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.HostAssociatedInterface_size_frac = Slot(uri=MIXS['0000017'], name="HostAssociatedInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_size_frac, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="HostAssociatedInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_specific_ecosystem, domain=HostAssociatedInterface, range=Optional[str]) + +slots.HostAssociatedInterface_temp = Slot(uri=MIXS['0000113'], name="HostAssociatedInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.HostAssociatedInterface_temp, domain=HostAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.JgiMgInterface_dna_absorb1 = Slot(uri=NMDC_YAML['nmdc/dna_absorb1'], name="JgiMgInterface_dna_absorb1", curie=NMDC_YAML.curie('nmdc/dna_absorb1'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_absorb1, domain=JgiMgInterface, range=Optional[float]) + +slots.JgiMgInterface_dna_absorb2 = Slot(uri=NMDC_YAML['nmdc/dna_absorb2'], name="JgiMgInterface_dna_absorb2", curie=NMDC_YAML.curie('nmdc/dna_absorb2'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_absorb2, domain=JgiMgInterface, range=Optional[float]) + +slots.JgiMgInterface_dna_concentration = Slot(uri=NMDC_YAML['nmdc/dna_concentration'], name="JgiMgInterface_dna_concentration", curie=NMDC_YAML.curie('nmdc/dna_concentration'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_concentration, domain=JgiMgInterface, range=float) + +slots.JgiMgInterface_dna_cont_type = Slot(uri=NMDC_YAML['nmdc/dna_cont_type'], name="JgiMgInterface_dna_cont_type", curie=NMDC_YAML.curie('nmdc/dna_cont_type'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_cont_type, domain=JgiMgInterface, range=Union[str, "JgiContTypeEnum"]) + +slots.JgiMgInterface_dna_cont_well = Slot(uri=NMDC_YAML['nmdc/dna_cont_well'], name="JgiMgInterface_dna_cont_well", curie=NMDC_YAML.curie('nmdc/dna_cont_well'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_cont_well, domain=JgiMgInterface, range=Optional[str], + pattern=re.compile(r'^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$')) + +slots.JgiMgInterface_dna_container_id = Slot(uri=NMDC_YAML['nmdc/dna_container_id'], name="JgiMgInterface_dna_container_id", curie=NMDC_YAML.curie('nmdc/dna_container_id'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_container_id, domain=JgiMgInterface, range=str, + pattern=re.compile(r'^.{1,20}$')) + +slots.JgiMgInterface_dna_dnase = Slot(uri=NMDC_YAML['nmdc/dna_dnase'], name="JgiMgInterface_dna_dnase", curie=NMDC_YAML.curie('nmdc/dna_dnase'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_dnase, domain=JgiMgInterface, range=Union[str, "YesNoEnum"]) + +slots.JgiMgInterface_dna_isolate_meth = Slot(uri=NMDC_YAML['nmdc/dna_isolate_meth'], name="JgiMgInterface_dna_isolate_meth", curie=NMDC_YAML.curie('nmdc/dna_isolate_meth'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_isolate_meth, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_project_contact = Slot(uri=NMDC_YAML['nmdc/dna_project_contact'], name="JgiMgInterface_dna_project_contact", curie=NMDC_YAML.curie('nmdc/dna_project_contact'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_project_contact, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_samp_id = Slot(uri=NMDC_YAML['nmdc/dna_samp_id'], name="JgiMgInterface_dna_samp_id", curie=NMDC_YAML.curie('nmdc/dna_samp_id'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_samp_id, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_sample_format = Slot(uri=NMDC_YAML['nmdc/dna_sample_format'], name="JgiMgInterface_dna_sample_format", curie=NMDC_YAML.curie('nmdc/dna_sample_format'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_sample_format, domain=JgiMgInterface, range=Union[str, "DnaSampleFormatEnum"]) + +slots.JgiMgInterface_dna_sample_name = Slot(uri=NMDC_YAML['nmdc/dna_sample_name'], name="JgiMgInterface_dna_sample_name", curie=NMDC_YAML.curie('nmdc/dna_sample_name'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_sample_name, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_seq_project = Slot(uri=NMDC_YAML['nmdc/dna_seq_project'], name="JgiMgInterface_dna_seq_project", curie=NMDC_YAML.curie('nmdc/dna_seq_project'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_seq_project, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_seq_project_name = Slot(uri=NMDC_YAML['nmdc/dna_seq_project_name'], name="JgiMgInterface_dna_seq_project_name", curie=NMDC_YAML.curie('nmdc/dna_seq_project_name'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_seq_project_name, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_seq_project_pi = Slot(uri=NMDC_YAML['nmdc/dna_seq_project_pi'], name="JgiMgInterface_dna_seq_project_pi", curie=NMDC_YAML.curie('nmdc/dna_seq_project_pi'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_seq_project_pi, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_dna_volume = Slot(uri=NMDC_YAML['nmdc/dna_volume'], name="JgiMgInterface_dna_volume", curie=NMDC_YAML.curie('nmdc/dna_volume'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_dna_volume, domain=JgiMgInterface, range=float) + +slots.JgiMgInterface_proposal_dna = Slot(uri=NMDC_YAML['nmdc/proposal_dna'], name="JgiMgInterface_proposal_dna", curie=NMDC_YAML.curie('nmdc/proposal_dna'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_proposal_dna, domain=JgiMgInterface, range=str) + +slots.JgiMgInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="JgiMgInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.JgiMgInterface_oxy_stat_samp, domain=JgiMgInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.JgiMtInterface_dnase_rna = Slot(uri=NMDC_YAML['nmdc/dnase_rna'], name="JgiMtInterface_dnase_rna", curie=NMDC_YAML.curie('nmdc/dnase_rna'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_dnase_rna, domain=JgiMtInterface, range=Union[str, "YesNoEnum"]) + +slots.JgiMtInterface_proposal_rna = Slot(uri=NMDC_YAML['nmdc/proposal_rna'], name="JgiMtInterface_proposal_rna", curie=NMDC_YAML.curie('nmdc/proposal_rna'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_proposal_rna, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_absorb1 = Slot(uri=NMDC_YAML['nmdc/rna_absorb1'], name="JgiMtInterface_rna_absorb1", curie=NMDC_YAML.curie('nmdc/rna_absorb1'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_absorb1, domain=JgiMtInterface, range=Optional[float]) + +slots.JgiMtInterface_rna_absorb2 = Slot(uri=NMDC_YAML['nmdc/rna_absorb2'], name="JgiMtInterface_rna_absorb2", curie=NMDC_YAML.curie('nmdc/rna_absorb2'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_absorb2, domain=JgiMtInterface, range=Optional[float]) + +slots.JgiMtInterface_rna_concentration = Slot(uri=NMDC_YAML['nmdc/rna_concentration'], name="JgiMtInterface_rna_concentration", curie=NMDC_YAML.curie('nmdc/rna_concentration'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_concentration, domain=JgiMtInterface, range=float) + +slots.JgiMtInterface_rna_cont_type = Slot(uri=NMDC_YAML['nmdc/rna_cont_type'], name="JgiMtInterface_rna_cont_type", curie=NMDC_YAML.curie('nmdc/rna_cont_type'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_cont_type, domain=JgiMtInterface, range=Union[str, "JgiContTypeEnum"]) + +slots.JgiMtInterface_rna_cont_well = Slot(uri=NMDC_YAML['nmdc/rna_cont_well'], name="JgiMtInterface_rna_cont_well", curie=NMDC_YAML.curie('nmdc/rna_cont_well'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_cont_well, domain=JgiMtInterface, range=Optional[str], + pattern=re.compile(r'^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$')) + +slots.JgiMtInterface_rna_container_id = Slot(uri=NMDC_YAML['nmdc/rna_container_id'], name="JgiMtInterface_rna_container_id", curie=NMDC_YAML.curie('nmdc/rna_container_id'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_container_id, domain=JgiMtInterface, range=str, + pattern=re.compile(r'^.{1,20}$')) + +slots.JgiMtInterface_rna_isolate_meth = Slot(uri=NMDC_YAML['nmdc/rna_isolate_meth'], name="JgiMtInterface_rna_isolate_meth", curie=NMDC_YAML.curie('nmdc/rna_isolate_meth'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_isolate_meth, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_project_contact = Slot(uri=NMDC_YAML['nmdc/rna_project_contact'], name="JgiMtInterface_rna_project_contact", curie=NMDC_YAML.curie('nmdc/rna_project_contact'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_project_contact, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_samp_id = Slot(uri=NMDC_YAML['nmdc/rna_samp_id'], name="JgiMtInterface_rna_samp_id", curie=NMDC_YAML.curie('nmdc/rna_samp_id'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_samp_id, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_sample_format = Slot(uri=NMDC_YAML['nmdc/rna_sample_format'], name="JgiMtInterface_rna_sample_format", curie=NMDC_YAML.curie('nmdc/rna_sample_format'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_sample_format, domain=JgiMtInterface, range=Union[str, "RnaSampleFormatEnum"]) + +slots.JgiMtInterface_rna_sample_name = Slot(uri=NMDC_YAML['nmdc/rna_sample_name'], name="JgiMtInterface_rna_sample_name", curie=NMDC_YAML.curie('nmdc/rna_sample_name'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_sample_name, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_seq_project = Slot(uri=NMDC_YAML['nmdc/rna_seq_project'], name="JgiMtInterface_rna_seq_project", curie=NMDC_YAML.curie('nmdc/rna_seq_project'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_seq_project, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_seq_project_name = Slot(uri=NMDC_YAML['nmdc/rna_seq_project_name'], name="JgiMtInterface_rna_seq_project_name", curie=NMDC_YAML.curie('nmdc/rna_seq_project_name'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_seq_project_name, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_seq_project_pi = Slot(uri=NMDC_YAML['nmdc/rna_seq_project_pi'], name="JgiMtInterface_rna_seq_project_pi", curie=NMDC_YAML.curie('nmdc/rna_seq_project_pi'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_seq_project_pi, domain=JgiMtInterface, range=str) + +slots.JgiMtInterface_rna_volume = Slot(uri=NMDC_YAML['nmdc/rna_volume'], name="JgiMtInterface_rna_volume", curie=NMDC_YAML.curie('nmdc/rna_volume'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_rna_volume, domain=JgiMtInterface, range=float) + +slots.JgiMtInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="JgiMtInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.JgiMtInterface_oxy_stat_samp, domain=JgiMtInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.MiscEnvsInterface_alkalinity = Slot(uri=MIXS['0000421'], name="MiscEnvsInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_alkalinity, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_alt = Slot(uri=MIXS['0000094'], name="MiscEnvsInterface_alt", curie=MIXS.curie('0000094'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_alt, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_ammonium = Slot(uri=MIXS['0000427'], name="MiscEnvsInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ammonium, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_biomass = Slot(uri=MIXS['0000174'], name="MiscEnvsInterface_biomass", curie=MIXS.curie('0000174'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_biomass, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.MiscEnvsInterface_bromide = Slot(uri=MIXS['0000176'], name="MiscEnvsInterface_bromide", curie=MIXS.curie('0000176'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_bromide, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_calcium = Slot(uri=MIXS['0000432'], name="MiscEnvsInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_calcium, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_chem_administration = Slot(uri=MIXS['0000751'], name="MiscEnvsInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_chem_administration, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.MiscEnvsInterface_chloride = Slot(uri=MIXS['0000429'], name="MiscEnvsInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_chloride, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_chlorophyll = Slot(uri=MIXS['0000177'], name="MiscEnvsInterface_chlorophyll", curie=MIXS.curie('0000177'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_chlorophyll, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_collection_date = Slot(uri=MIXS['0000011'], name="MiscEnvsInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_collection_date, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.MiscEnvsInterface_density = Slot(uri=MIXS['0000435'], name="MiscEnvsInterface_density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_density, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_depth = Slot(uri=MIXS['0000018'], name="MiscEnvsInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_depth, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.MiscEnvsInterface_diether_lipids = Slot(uri=MIXS['0000178'], name="MiscEnvsInterface_diether_lipids", curie=MIXS.curie('0000178'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diether_lipids, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.MiscEnvsInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="MiscEnvsInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diss_carb_dioxide, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_diss_hydrogen = Slot(uri=MIXS['0000179'], name="MiscEnvsInterface_diss_hydrogen", curie=MIXS.curie('0000179'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diss_hydrogen, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="MiscEnvsInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diss_inorg_carb, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_diss_org_nitro = Slot(uri=MIXS['0000162'], name="MiscEnvsInterface_diss_org_nitro", curie=MIXS.curie('0000162'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diss_org_nitro, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_diss_oxygen = Slot(uri=MIXS['0000119'], name="MiscEnvsInterface_diss_oxygen", curie=MIXS.curie('0000119'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_diss_oxygen, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="MiscEnvsInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ecosystem, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="MiscEnvsInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ecosystem_category, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="MiscEnvsInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ecosystem_subtype, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="MiscEnvsInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ecosystem_type, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_elev = Slot(uri=MIXS['0000093'], name="MiscEnvsInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_elev, domain=MiscEnvsInterface, range=float) + +slots.MiscEnvsInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="MiscEnvsInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_env_broad_scale, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.MiscEnvsInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="MiscEnvsInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_env_local_scale, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.MiscEnvsInterface_env_medium = Slot(uri=MIXS['0000014'], name="MiscEnvsInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_env_medium, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.MiscEnvsInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="MiscEnvsInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_env_package, domain=MiscEnvsInterface, range=str) + +slots.MiscEnvsInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="MiscEnvsInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_experimental_factor, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="MiscEnvsInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_geo_loc_name, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.MiscEnvsInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="MiscEnvsInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_horizon_meth, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_lat_lon = Slot(uri=MIXS['0000009'], name="MiscEnvsInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_lat_lon, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.MiscEnvsInterface_misc_param = Slot(uri=MIXS['0000752'], name="MiscEnvsInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_misc_param, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.MiscEnvsInterface_nitrate = Slot(uri=MIXS['0000425'], name="MiscEnvsInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_nitrate, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_nitrite = Slot(uri=MIXS['0000426'], name="MiscEnvsInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_nitrite, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_nitro = Slot(uri=MIXS['0000504'], name="MiscEnvsInterface_nitro", curie=MIXS.curie('0000504'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_nitro, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_org_carb = Slot(uri=MIXS['0000508'], name="MiscEnvsInterface_org_carb", curie=MIXS.curie('0000508'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_org_carb, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_org_matter = Slot(uri=MIXS['0000204'], name="MiscEnvsInterface_org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_org_matter, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_org_nitro = Slot(uri=MIXS['0000205'], name="MiscEnvsInterface_org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_org_nitro, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_organism_count = Slot(uri=MIXS['0000103'], name="MiscEnvsInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_organism_count, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.MiscEnvsInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="MiscEnvsInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_oxy_stat_samp, domain=MiscEnvsInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.MiscEnvsInterface_perturbation = Slot(uri=MIXS['0000754'], name="MiscEnvsInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_perturbation, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_ph = Slot(uri=MIXS['0001001'], name="MiscEnvsInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ph, domain=MiscEnvsInterface, range=Optional[float]) + +slots.MiscEnvsInterface_ph_meth = Slot(uri=MIXS['0001106'], name="MiscEnvsInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_ph_meth, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_phosphate = Slot(uri=MIXS['0000505'], name="MiscEnvsInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_phosphate, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_phosplipid_fatt_acid = Slot(uri=MIXS['0000181'], name="MiscEnvsInterface_phosplipid_fatt_acid", curie=MIXS.curie('0000181'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_phosplipid_fatt_acid, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.MiscEnvsInterface_potassium = Slot(uri=MIXS['0000430'], name="MiscEnvsInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_potassium, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_pressure = Slot(uri=MIXS['0000412'], name="MiscEnvsInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_pressure, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_salinity = Slot(uri=MIXS['0000183'], name="MiscEnvsInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_salinity, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="MiscEnvsInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_collec_device, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="MiscEnvsInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_collec_method, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="MiscEnvsInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_mat_process, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_samp_size = Slot(uri=MIXS['0000001'], name="MiscEnvsInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_size, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.MiscEnvsInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="MiscEnvsInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_store_dur, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="MiscEnvsInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_store_loc, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="MiscEnvsInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_samp_store_temp, domain=MiscEnvsInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="MiscEnvsInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_sample_link, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.MiscEnvsInterface_silicate = Slot(uri=MIXS['0000184'], name="MiscEnvsInterface_silicate", curie=MIXS.curie('0000184'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_silicate, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_size_frac = Slot(uri=MIXS['0000017'], name="MiscEnvsInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_size_frac, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_sodium = Slot(uri=MIXS['0000428'], name="MiscEnvsInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_sodium, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="MiscEnvsInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_specific_ecosystem, domain=MiscEnvsInterface, range=Optional[str]) + +slots.MiscEnvsInterface_sulfate = Slot(uri=MIXS['0000423'], name="MiscEnvsInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_sulfate, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_sulfide = Slot(uri=MIXS['0000424'], name="MiscEnvsInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_sulfide, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_temp = Slot(uri=MIXS['0000113'], name="MiscEnvsInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_temp, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.MiscEnvsInterface_water_current = Slot(uri=MIXS['0000203'], name="MiscEnvsInterface_water_current", curie=MIXS.curie('0000203'), + model_uri=NMDC_SUB_SCHEMA.MiscEnvsInterface_water_current, domain=MiscEnvsInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_air_temp_regm = Slot(uri=MIXS['0000551'], name="PlantAssociatedInterface_air_temp_regm", curie=MIXS.curie('0000551'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_air_temp_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_ances_data = Slot(uri=MIXS['0000247'], name="PlantAssociatedInterface_ances_data", curie=MIXS.curie('0000247'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ances_data, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_antibiotic_regm = Slot(uri=MIXS['0000553'], name="PlantAssociatedInterface_antibiotic_regm", curie=MIXS.curie('0000553'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_antibiotic_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_biol_stat = Slot(uri=MIXS['0000858'], name="PlantAssociatedInterface_biol_stat", curie=MIXS.curie('0000858'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_biol_stat, domain=PlantAssociatedInterface, range=Optional[Union[str, "BiolStatEnum"]]) + +slots.PlantAssociatedInterface_biotic_regm = Slot(uri=MIXS['0001038'], name="PlantAssociatedInterface_biotic_regm", curie=MIXS.curie('0001038'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_biotic_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_chem_administration = Slot(uri=MIXS['0000751'], name="PlantAssociatedInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_chem_administration, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.PlantAssociatedInterface_chem_mutagen = Slot(uri=MIXS['0000555'], name="PlantAssociatedInterface_chem_mutagen", curie=MIXS.curie('0000555'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_chem_mutagen, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_climate_environment = Slot(uri=MIXS['0001040'], name="PlantAssociatedInterface_climate_environment", curie=MIXS.curie('0001040'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_climate_environment, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_collection_date = Slot(uri=MIXS['0000011'], name="PlantAssociatedInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_collection_date, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.PlantAssociatedInterface_cult_root_med = Slot(uri=MIXS['0001041'], name="PlantAssociatedInterface_cult_root_med", curie=MIXS.curie('0001041'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_cult_root_med, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_depth = Slot(uri=MIXS['0000018'], name="PlantAssociatedInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_depth, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.PlantAssociatedInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="PlantAssociatedInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ecosystem, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="PlantAssociatedInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ecosystem_category, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="PlantAssociatedInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ecosystem_subtype, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="PlantAssociatedInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ecosystem_type, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_elev = Slot(uri=MIXS['0000093'], name="PlantAssociatedInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_elev, domain=PlantAssociatedInterface, range=float) + +slots.PlantAssociatedInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="PlantAssociatedInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_env_broad_scale, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.PlantAssociatedInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="PlantAssociatedInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_env_local_scale, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.PlantAssociatedInterface_env_medium = Slot(uri=MIXS['0000014'], name="PlantAssociatedInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_env_medium, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.PlantAssociatedInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="PlantAssociatedInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_env_package, domain=PlantAssociatedInterface, range=str) + +slots.PlantAssociatedInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="PlantAssociatedInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_experimental_factor, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_fertilizer_regm = Slot(uri=MIXS['0000556'], name="PlantAssociatedInterface_fertilizer_regm", curie=MIXS.curie('0000556'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_fertilizer_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_fungicide_regm = Slot(uri=MIXS['0000557'], name="PlantAssociatedInterface_fungicide_regm", curie=MIXS.curie('0000557'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_fungicide_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_gaseous_environment = Slot(uri=MIXS['0000558'], name="PlantAssociatedInterface_gaseous_environment", curie=MIXS.curie('0000558'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_gaseous_environment, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_genetic_mod = Slot(uri=MIXS['0000859'], name="PlantAssociatedInterface_genetic_mod", curie=MIXS.curie('0000859'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_genetic_mod, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="PlantAssociatedInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_geo_loc_name, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.PlantAssociatedInterface_gravity = Slot(uri=MIXS['0000559'], name="PlantAssociatedInterface_gravity", curie=MIXS.curie('0000559'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_gravity, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_growth_facil = Slot(uri=MIXS['0001043'], name="PlantAssociatedInterface_growth_facil", curie=MIXS.curie('0001043'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_growth_facil, domain=PlantAssociatedInterface, range=Union[str, "GrowthFacilEnum"]) + +slots.PlantAssociatedInterface_growth_habit = Slot(uri=MIXS['0001044'], name="PlantAssociatedInterface_growth_habit", curie=MIXS.curie('0001044'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_growth_habit, domain=PlantAssociatedInterface, range=Optional[Union[str, "GrowthHabitEnum"]]) + +slots.PlantAssociatedInterface_growth_hormone_regm = Slot(uri=MIXS['0000560'], name="PlantAssociatedInterface_growth_hormone_regm", curie=MIXS.curie('0000560'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_growth_hormone_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_herbicide_regm = Slot(uri=MIXS['0000561'], name="PlantAssociatedInterface_herbicide_regm", curie=MIXS.curie('0000561'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_herbicide_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="PlantAssociatedInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_horizon_meth, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_age = Slot(uri=MIXS['0000255'], name="PlantAssociatedInterface_host_age", curie=MIXS.curie('0000255'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_age, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_host_common_name = Slot(uri=MIXS['0000248'], name="PlantAssociatedInterface_host_common_name", curie=MIXS.curie('0000248'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_common_name, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_dry_mass = Slot(uri=MIXS['0000257'], name="PlantAssociatedInterface_host_dry_mass", curie=MIXS.curie('0000257'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_dry_mass, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_host_genotype = Slot(uri=MIXS['0000365'], name="PlantAssociatedInterface_host_genotype", curie=MIXS.curie('0000365'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_genotype, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_height = Slot(uri=MIXS['0000264'], name="PlantAssociatedInterface_host_height", curie=MIXS.curie('0000264'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_height, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_host_length = Slot(uri=MIXS['0000256'], name="PlantAssociatedInterface_host_length", curie=MIXS.curie('0000256'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_length, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_host_life_stage = Slot(uri=MIXS['0000251'], name="PlantAssociatedInterface_host_life_stage", curie=MIXS.curie('0000251'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_life_stage, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_phenotype = Slot(uri=MIXS['0000874'], name="PlantAssociatedInterface_host_phenotype", curie=MIXS.curie('0000874'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_phenotype, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.PlantAssociatedInterface_host_subspecf_genlin = Slot(uri=MIXS['0001318'], name="PlantAssociatedInterface_host_subspecf_genlin", curie=MIXS.curie('0001318'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_subspecf_genlin, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_symbiont = Slot(uri=MIXS['0001298'], name="PlantAssociatedInterface_host_symbiont", curie=MIXS.curie('0001298'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_symbiont, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_taxid = Slot(uri=MIXS['0000250'], name="PlantAssociatedInterface_host_taxid", curie=MIXS.curie('0000250'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_taxid, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_host_tot_mass = Slot(uri=MIXS['0000263'], name="PlantAssociatedInterface_host_tot_mass", curie=MIXS.curie('0000263'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_tot_mass, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_host_wet_mass = Slot(uri=MIXS['0000567'], name="PlantAssociatedInterface_host_wet_mass", curie=MIXS.curie('0000567'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_host_wet_mass, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_humidity_regm = Slot(uri=MIXS['0000568'], name="PlantAssociatedInterface_humidity_regm", curie=MIXS.curie('0000568'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_humidity_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_lat_lon = Slot(uri=MIXS['0000009'], name="PlantAssociatedInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_lat_lon, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.PlantAssociatedInterface_light_regm = Slot(uri=MIXS['0000569'], name="PlantAssociatedInterface_light_regm", curie=MIXS.curie('0000569'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_light_regm, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.PlantAssociatedInterface_mechanical_damage = Slot(uri=MIXS['0001052'], name="PlantAssociatedInterface_mechanical_damage", curie=MIXS.curie('0001052'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_mechanical_damage, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_mineral_nutr_regm = Slot(uri=MIXS['0000570'], name="PlantAssociatedInterface_mineral_nutr_regm", curie=MIXS.curie('0000570'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_mineral_nutr_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_misc_param = Slot(uri=MIXS['0000752'], name="PlantAssociatedInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_misc_param, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.PlantAssociatedInterface_non_min_nutr_regm = Slot(uri=MIXS['0000571'], name="PlantAssociatedInterface_non_min_nutr_regm", curie=MIXS.curie('0000571'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_non_min_nutr_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_organism_count = Slot(uri=MIXS['0000103'], name="PlantAssociatedInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_organism_count, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.PlantAssociatedInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="PlantAssociatedInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_oxy_stat_samp, domain=PlantAssociatedInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.PlantAssociatedInterface_perturbation = Slot(uri=MIXS['0000754'], name="PlantAssociatedInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_perturbation, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_pesticide_regm = Slot(uri=MIXS['0000573'], name="PlantAssociatedInterface_pesticide_regm", curie=MIXS.curie('0000573'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_pesticide_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_ph_regm = Slot(uri=MIXS['0001056'], name="PlantAssociatedInterface_ph_regm", curie=MIXS.curie('0001056'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_ph_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_plant_growth_med = Slot(uri=MIXS['0001057'], name="PlantAssociatedInterface_plant_growth_med", curie=MIXS.curie('0001057'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_plant_growth_med, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_plant_product = Slot(uri=MIXS['0001058'], name="PlantAssociatedInterface_plant_product", curie=MIXS.curie('0001058'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_plant_product, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_plant_sex = Slot(uri=MIXS['0001059'], name="PlantAssociatedInterface_plant_sex", curie=MIXS.curie('0001059'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_plant_sex, domain=PlantAssociatedInterface, range=Optional[Union[str, "PlantSexEnum"]]) + +slots.PlantAssociatedInterface_plant_struc = Slot(uri=MIXS['0001060'], name="PlantAssociatedInterface_plant_struc", curie=MIXS.curie('0001060'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_plant_struc, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.PlantAssociatedInterface_radiation_regm = Slot(uri=MIXS['0000575'], name="PlantAssociatedInterface_radiation_regm", curie=MIXS.curie('0000575'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_radiation_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_rainfall_regm = Slot(uri=MIXS['0000576'], name="PlantAssociatedInterface_rainfall_regm", curie=MIXS.curie('0000576'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_rainfall_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_root_cond = Slot(uri=MIXS['0001061'], name="PlantAssociatedInterface_root_cond", curie=MIXS.curie('0001061'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_cond, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_root_med_carbon = Slot(uri=MIXS['0000577'], name="PlantAssociatedInterface_root_med_carbon", curie=MIXS.curie('0000577'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_carbon, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.PlantAssociatedInterface_root_med_macronutr = Slot(uri=MIXS['0000578'], name="PlantAssociatedInterface_root_med_macronutr", curie=MIXS.curie('0000578'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_macronutr, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.PlantAssociatedInterface_root_med_micronutr = Slot(uri=MIXS['0000579'], name="PlantAssociatedInterface_root_med_micronutr", curie=MIXS.curie('0000579'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_micronutr, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.PlantAssociatedInterface_root_med_ph = Slot(uri=MIXS['0001062'], name="PlantAssociatedInterface_root_med_ph", curie=MIXS.curie('0001062'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_ph, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_root_med_regl = Slot(uri=MIXS['0000581'], name="PlantAssociatedInterface_root_med_regl", curie=MIXS.curie('0000581'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_regl, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.PlantAssociatedInterface_root_med_solid = Slot(uri=MIXS['0001063'], name="PlantAssociatedInterface_root_med_solid", curie=MIXS.curie('0001063'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_solid, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_root_med_suppl = Slot(uri=MIXS['0000580'], name="PlantAssociatedInterface_root_med_suppl", curie=MIXS.curie('0000580'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_root_med_suppl, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.PlantAssociatedInterface_salinity = Slot(uri=MIXS['0000183'], name="PlantAssociatedInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_salinity, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_salt_regm = Slot(uri=MIXS['0000582'], name="PlantAssociatedInterface_salt_regm", curie=MIXS.curie('0000582'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_salt_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_capt_status = Slot(uri=MIXS['0000860'], name="PlantAssociatedInterface_samp_capt_status", curie=MIXS.curie('0000860'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_capt_status, domain=PlantAssociatedInterface, range=Optional[Union[str, "SampCaptStatusEnum"]]) + +slots.PlantAssociatedInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="PlantAssociatedInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_collec_device, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="PlantAssociatedInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_collec_method, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_dis_stage = Slot(uri=MIXS['0000249'], name="PlantAssociatedInterface_samp_dis_stage", curie=MIXS.curie('0000249'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_dis_stage, domain=PlantAssociatedInterface, range=Optional[Union[str, "SampDisStageEnum"]]) + +slots.PlantAssociatedInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="PlantAssociatedInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_mat_process, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_size = Slot(uri=MIXS['0000001'], name="PlantAssociatedInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_size, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.PlantAssociatedInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="PlantAssociatedInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_store_dur, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="PlantAssociatedInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_store_loc, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="PlantAssociatedInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_samp_store_temp, domain=PlantAssociatedInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="PlantAssociatedInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_sample_link, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.PlantAssociatedInterface_season_environment = Slot(uri=MIXS['0001068'], name="PlantAssociatedInterface_season_environment", curie=MIXS.curie('0001068'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_season_environment, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_size_frac = Slot(uri=MIXS['0000017'], name="PlantAssociatedInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_size_frac, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="PlantAssociatedInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_specific_ecosystem, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_standing_water_regm = Slot(uri=MIXS['0001069'], name="PlantAssociatedInterface_standing_water_regm", curie=MIXS.curie('0001069'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_standing_water_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_temp = Slot(uri=MIXS['0000113'], name="PlantAssociatedInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_temp, domain=PlantAssociatedInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.PlantAssociatedInterface_tiss_cult_growth_med = Slot(uri=MIXS['0001070'], name="PlantAssociatedInterface_tiss_cult_growth_med", curie=MIXS.curie('0001070'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_tiss_cult_growth_med, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_water_temp_regm = Slot(uri=MIXS['0000590'], name="PlantAssociatedInterface_water_temp_regm", curie=MIXS.curie('0000590'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_water_temp_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.PlantAssociatedInterface_watering_regm = Slot(uri=MIXS['0000591'], name="PlantAssociatedInterface_watering_regm", curie=MIXS.curie('0000591'), + model_uri=NMDC_SUB_SCHEMA.PlantAssociatedInterface_watering_regm, domain=PlantAssociatedInterface, range=Optional[str]) + +slots.SedimentInterface_alkalinity = Slot(uri=MIXS['0000421'], name="SedimentInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_alkalinity, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_alkyl_diethers = Slot(uri=MIXS['0000490'], name="SedimentInterface_alkyl_diethers", curie=MIXS.curie('0000490'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_alkyl_diethers, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_aminopept_act = Slot(uri=MIXS['0000172'], name="SedimentInterface_aminopept_act", curie=MIXS.curie('0000172'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_aminopept_act, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_ammonium = Slot(uri=MIXS['0000427'], name="SedimentInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ammonium, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_bacteria_carb_prod = Slot(uri=MIXS['0000173'], name="SedimentInterface_bacteria_carb_prod", curie=MIXS.curie('0000173'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_bacteria_carb_prod, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_biomass = Slot(uri=MIXS['0000174'], name="SedimentInterface_biomass", curie=MIXS.curie('0000174'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_biomass, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_bishomohopanol = Slot(uri=MIXS['0000175'], name="SedimentInterface_bishomohopanol", curie=MIXS.curie('0000175'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_bishomohopanol, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_bromide = Slot(uri=MIXS['0000176'], name="SedimentInterface_bromide", curie=MIXS.curie('0000176'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_bromide, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_calcium = Slot(uri=MIXS['0000432'], name="SedimentInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_calcium, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_carb_nitro_ratio = Slot(uri=MIXS['0000310'], name="SedimentInterface_carb_nitro_ratio", curie=MIXS.curie('0000310'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_carb_nitro_ratio, domain=SedimentInterface, range=Optional[float], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_chem_administration = Slot(uri=MIXS['0000751'], name="SedimentInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_chem_administration, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.SedimentInterface_chloride = Slot(uri=MIXS['0000429'], name="SedimentInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_chloride, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_chlorophyll = Slot(uri=MIXS['0000177'], name="SedimentInterface_chlorophyll", curie=MIXS.curie('0000177'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_chlorophyll, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_collection_date = Slot(uri=MIXS['0000011'], name="SedimentInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_collection_date, domain=SedimentInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SedimentInterface_density = Slot(uri=MIXS['0000435'], name="SedimentInterface_density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_density, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_depth = Slot(uri=MIXS['0000018'], name="SedimentInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_depth, domain=SedimentInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$')) + +slots.SedimentInterface_diether_lipids = Slot(uri=MIXS['0000178'], name="SedimentInterface_diether_lipids", curie=MIXS.curie('0000178'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diether_lipids, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="SedimentInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_carb_dioxide, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_diss_hydrogen = Slot(uri=MIXS['0000179'], name="SedimentInterface_diss_hydrogen", curie=MIXS.curie('0000179'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_hydrogen, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="SedimentInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_inorg_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_diss_org_carb = Slot(uri=MIXS['0000433'], name="SedimentInterface_diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_org_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_diss_org_nitro = Slot(uri=MIXS['0000162'], name="SedimentInterface_diss_org_nitro", curie=MIXS.curie('0000162'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_org_nitro, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_diss_oxygen = Slot(uri=MIXS['0000119'], name="SedimentInterface_diss_oxygen", curie=MIXS.curie('0000119'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_diss_oxygen, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="SedimentInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ecosystem, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="SedimentInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ecosystem_category, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="SedimentInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ecosystem_subtype, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="SedimentInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ecosystem_type, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_elev = Slot(uri=MIXS['0000093'], name="SedimentInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_elev, domain=SedimentInterface, range=float) + +slots.SedimentInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="SedimentInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_env_broad_scale, domain=SedimentInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SedimentInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="SedimentInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_env_local_scale, domain=SedimentInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SedimentInterface_env_medium = Slot(uri=MIXS['0000014'], name="SedimentInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_env_medium, domain=SedimentInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SedimentInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="SedimentInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_env_package, domain=SedimentInterface, range=str) + +slots.SedimentInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="SedimentInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_experimental_factor, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="SedimentInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_geo_loc_name, domain=SedimentInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.SedimentInterface_glucosidase_act = Slot(uri=MIXS['0000137'], name="SedimentInterface_glucosidase_act", curie=MIXS.curie('0000137'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_glucosidase_act, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="SedimentInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_horizon_meth, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_lat_lon = Slot(uri=MIXS['0000009'], name="SedimentInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_lat_lon, domain=SedimentInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.SedimentInterface_magnesium = Slot(uri=MIXS['0000431'], name="SedimentInterface_magnesium", curie=MIXS.curie('0000431'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_magnesium, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_mean_frict_vel = Slot(uri=MIXS['0000498'], name="SedimentInterface_mean_frict_vel", curie=MIXS.curie('0000498'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_mean_frict_vel, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_mean_peak_frict_vel = Slot(uri=MIXS['0000502'], name="SedimentInterface_mean_peak_frict_vel", curie=MIXS.curie('0000502'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_mean_peak_frict_vel, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_methane = Slot(uri=MIXS['0000101'], name="SedimentInterface_methane", curie=MIXS.curie('0000101'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_methane, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_misc_param = Slot(uri=MIXS['0000752'], name="SedimentInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_misc_param, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_n_alkanes = Slot(uri=MIXS['0000503'], name="SedimentInterface_n_alkanes", curie=MIXS.curie('0000503'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_n_alkanes, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_nitrate = Slot(uri=MIXS['0000425'], name="SedimentInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_nitrate, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_nitrite = Slot(uri=MIXS['0000426'], name="SedimentInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_nitrite, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_nitro = Slot(uri=MIXS['0000504'], name="SedimentInterface_nitro", curie=MIXS.curie('0000504'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_nitro, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_org_carb = Slot(uri=MIXS['0000508'], name="SedimentInterface_org_carb", curie=MIXS.curie('0000508'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_org_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_org_matter = Slot(uri=MIXS['0000204'], name="SedimentInterface_org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_org_matter, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_org_nitro = Slot(uri=MIXS['0000205'], name="SedimentInterface_org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_org_nitro, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_organism_count = Slot(uri=MIXS['0000103'], name="SedimentInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_organism_count, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.SedimentInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="SedimentInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_oxy_stat_samp, domain=SedimentInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.SedimentInterface_part_org_carb = Slot(uri=MIXS['0000515'], name="SedimentInterface_part_org_carb", curie=MIXS.curie('0000515'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_part_org_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_particle_class = Slot(uri=MIXS['0000206'], name="SedimentInterface_particle_class", curie=MIXS.curie('0000206'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_particle_class, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_perturbation = Slot(uri=MIXS['0000754'], name="SedimentInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_perturbation, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_petroleum_hydrocarb = Slot(uri=MIXS['0000516'], name="SedimentInterface_petroleum_hydrocarb", curie=MIXS.curie('0000516'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_petroleum_hydrocarb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_ph = Slot(uri=MIXS['0001001'], name="SedimentInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ph, domain=SedimentInterface, range=Optional[float]) + +slots.SedimentInterface_ph_meth = Slot(uri=MIXS['0001106'], name="SedimentInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_ph_meth, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_phaeopigments = Slot(uri=MIXS['0000180'], name="SedimentInterface_phaeopigments", curie=MIXS.curie('0000180'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_phaeopigments, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_phosphate = Slot(uri=MIXS['0000505'], name="SedimentInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_phosphate, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_phosplipid_fatt_acid = Slot(uri=MIXS['0000181'], name="SedimentInterface_phosplipid_fatt_acid", curie=MIXS.curie('0000181'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_phosplipid_fatt_acid, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SedimentInterface_porosity = Slot(uri=MIXS['0000211'], name="SedimentInterface_porosity", curie=MIXS.curie('0000211'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_porosity, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_potassium = Slot(uri=MIXS['0000430'], name="SedimentInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_potassium, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_pressure = Slot(uri=MIXS['0000412'], name="SedimentInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_pressure, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_redox_potential = Slot(uri=MIXS['0000182'], name="SedimentInterface_redox_potential", curie=MIXS.curie('0000182'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_redox_potential, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_salinity = Slot(uri=MIXS['0000183'], name="SedimentInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_salinity, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="SedimentInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_collec_device, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="SedimentInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_collec_method, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="SedimentInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_mat_process, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_samp_size = Slot(uri=MIXS['0000001'], name="SedimentInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_size, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SedimentInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="SedimentInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_store_dur, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="SedimentInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_store_loc, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="SedimentInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_samp_store_temp, domain=SedimentInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="SedimentInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_sample_link, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.SedimentInterface_sediment_type = Slot(uri=MIXS['0001078'], name="SedimentInterface_sediment_type", curie=MIXS.curie('0001078'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_sediment_type, domain=SedimentInterface, range=Optional[Union[str, "SedimentTypeEnum"]]) + +slots.SedimentInterface_silicate = Slot(uri=MIXS['0000184'], name="SedimentInterface_silicate", curie=MIXS.curie('0000184'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_silicate, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_size_frac = Slot(uri=MIXS['0000017'], name="SedimentInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_size_frac, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_sodium = Slot(uri=MIXS['0000428'], name="SedimentInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_sodium, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="SedimentInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_specific_ecosystem, domain=SedimentInterface, range=Optional[str]) + +slots.SedimentInterface_sulfate = Slot(uri=MIXS['0000423'], name="SedimentInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_sulfate, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_sulfide = Slot(uri=MIXS['0000424'], name="SedimentInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_sulfide, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_temp = Slot(uri=MIXS['0000113'], name="SedimentInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_temp, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_tidal_stage = Slot(uri=MIXS['0000750'], name="SedimentInterface_tidal_stage", curie=MIXS.curie('0000750'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_tidal_stage, domain=SedimentInterface, range=Optional[Union[str, "TidalStageEnum"]]) + +slots.SedimentInterface_tot_carb = Slot(uri=MIXS['0000525'], name="SedimentInterface_tot_carb", curie=MIXS.curie('0000525'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_tot_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_tot_depth_water_col = Slot(uri=MIXS['0000634'], name="SedimentInterface_tot_depth_water_col", curie=MIXS.curie('0000634'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_tot_depth_water_col, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_tot_nitro_content = Slot(uri=MIXS['0000530'], name="SedimentInterface_tot_nitro_content", curie=MIXS.curie('0000530'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_tot_nitro_content, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_tot_org_carb = Slot(uri=MIXS['0000533'], name="SedimentInterface_tot_org_carb", curie=MIXS.curie('0000533'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_tot_org_carb, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_turbidity = Slot(uri=MIXS['0000191'], name="SedimentInterface_turbidity", curie=MIXS.curie('0000191'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_turbidity, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SedimentInterface_water_content = Slot(uri=MIXS['0000185'], name="SedimentInterface_water_content", curie=MIXS.curie('0000185'), + model_uri=NMDC_SUB_SCHEMA.SedimentInterface_water_content, domain=SedimentInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$')) + +slots.SoilInterface_agrochem_addition = Slot(uri=MIXS['0000639'], name="SoilInterface_agrochem_addition", curie=MIXS.curie('0000639'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_agrochem_addition, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'.*')) + +slots.SoilInterface_air_temp_regm = Slot(uri=MIXS['0000551'], name="SoilInterface_air_temp_regm", curie=MIXS.curie('0000551'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_air_temp_regm, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_al_sat = Slot(uri=MIXS['0000607'], name="SoilInterface_al_sat", curie=MIXS.curie('0000607'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_al_sat, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_al_sat_meth = Slot(uri=MIXS['0000324'], name="SoilInterface_al_sat_meth", curie=MIXS.curie('0000324'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_al_sat_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_ammonium_nitrogen = Slot(uri=NMDC_YAML['nmdc/ammonium_nitrogen'], name="SoilInterface_ammonium_nitrogen", curie=NMDC_YAML.curie('nmdc/ammonium_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ammonium_nitrogen, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_annual_precpt = Slot(uri=MIXS['0000644'], name="SoilInterface_annual_precpt", curie=MIXS.curie('0000644'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_annual_precpt, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_annual_temp = Slot(uri=MIXS['0000642'], name="SoilInterface_annual_temp", curie=MIXS.curie('0000642'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_annual_temp, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_biotic_regm = Slot(uri=MIXS['0001038'], name="SoilInterface_biotic_regm", curie=MIXS.curie('0001038'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_biotic_regm, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_biotic_relationship = Slot(uri=MIXS['0000028'], name="SoilInterface_biotic_relationship", curie=MIXS.curie('0000028'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_biotic_relationship, domain=SoilInterface, range=Optional[Union[str, "BioticRelationshipEnum"]]) + +slots.SoilInterface_carb_nitro_ratio = Slot(uri=MIXS['0000310'], name="SoilInterface_carb_nitro_ratio", curie=MIXS.curie('0000310'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_carb_nitro_ratio, domain=SoilInterface, range=Optional[float], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_chem_administration = Slot(uri=MIXS['0000751'], name="SoilInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_chem_administration, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.SoilInterface_climate_environment = Slot(uri=MIXS['0001040'], name="SoilInterface_climate_environment", curie=MIXS.curie('0001040'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_climate_environment, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_collection_date = Slot(uri=MIXS['0000011'], name="SoilInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_collection_date, domain=SoilInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SoilInterface_collection_date_inc = Slot(uri=NMDC_YAML['nmdc/collection_date_inc'], name="SoilInterface_collection_date_inc", curie=NMDC_YAML.curie('nmdc/collection_date_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_collection_date_inc, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SoilInterface_collection_time = Slot(uri=NMDC_YAML['nmdc/collection_time'], name="SoilInterface_collection_time", curie=NMDC_YAML.curie('nmdc/collection_time'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_collection_time, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) + +slots.SoilInterface_collection_time_inc = Slot(uri=NMDC_YAML['nmdc/collection_time_inc'], name="SoilInterface_collection_time_inc", curie=NMDC_YAML.curie('nmdc/collection_time_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_collection_time_inc, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) + +slots.SoilInterface_crop_rotation = Slot(uri=MIXS['0000318'], name="SoilInterface_crop_rotation", curie=MIXS.curie('0000318'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_crop_rotation, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_cur_land_use = Slot(uri=MIXS['0001080'], name="SoilInterface_cur_land_use", curie=MIXS.curie('0001080'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_cur_land_use, domain=SoilInterface, range=Optional[Union[str, "CurLandUseEnum"]]) + +slots.SoilInterface_cur_vegetation = Slot(uri=MIXS['0000312'], name="SoilInterface_cur_vegetation", curie=MIXS.curie('0000312'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_cur_vegetation, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_cur_vegetation_meth = Slot(uri=MIXS['0000314'], name="SoilInterface_cur_vegetation_meth", curie=MIXS.curie('0000314'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_cur_vegetation_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_depth = Slot(uri=MIXS['0000018'], name="SoilInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_depth, domain=SoilInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$')) + +slots.SoilInterface_drainage_class = Slot(uri=MIXS['0001085'], name="SoilInterface_drainage_class", curie=MIXS.curie('0001085'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_drainage_class, domain=SoilInterface, range=Optional[Union[str, "DrainageClassEnum"]]) + +slots.SoilInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="SoilInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ecosystem, domain=SoilInterface, range=Optional[Union[str, "EcosystemEnum"]]) + +slots.SoilInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="SoilInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ecosystem_category, domain=SoilInterface, range=Optional[Union[str, "EcosystemCategoryEnum"]]) + +slots.SoilInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="SoilInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ecosystem_subtype, domain=SoilInterface, range=Optional[Union[str, "EcosystemSubtypeEnum"]]) + +slots.SoilInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="SoilInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ecosystem_type, domain=SoilInterface, range=Optional[Union[str, "EcosystemTypeEnum"]]) + +slots.SoilInterface_elev = Slot(uri=MIXS['0000093'], name="SoilInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_elev, domain=SoilInterface, range=float) + +slots.SoilInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="SoilInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_env_broad_scale, domain=SoilInterface, range=Union[str, "EnvBroadScaleSoilEnum"], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SoilInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="SoilInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_env_local_scale, domain=SoilInterface, range=Union[str, "EnvLocalScaleSoilEnum"], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SoilInterface_env_medium = Slot(uri=MIXS['0000014'], name="SoilInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_env_medium, domain=SoilInterface, range=Union[str, "EnvMediumSoilEnum"], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SoilInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="SoilInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_env_package, domain=SoilInterface, range=str) + +slots.SoilInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="SoilInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_experimental_factor, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_experimental_factor_other = Slot(uri=NMDC_YAML['nmdc/experimental_factor_other'], name="SoilInterface_experimental_factor_other", curie=NMDC_YAML.curie('nmdc/experimental_factor_other'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_experimental_factor_other, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_extreme_event = Slot(uri=MIXS['0000320'], name="SoilInterface_extreme_event", curie=MIXS.curie('0000320'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_extreme_event, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_fao_class = Slot(uri=MIXS['0001083'], name="SoilInterface_fao_class", curie=MIXS.curie('0001083'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_fao_class, domain=SoilInterface, range=Optional[Union[str, "FaoClassEnum"]]) + +slots.SoilInterface_filter_method = Slot(uri=NMDC_YAML['nmdc/filter_method'], name="SoilInterface_filter_method", curie=NMDC_YAML.curie('nmdc/filter_method'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_filter_method, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_fire = Slot(uri=MIXS['0001086'], name="SoilInterface_fire", curie=MIXS.curie('0001086'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_fire, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?(\s+to\s+[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?)?$')) + +slots.SoilInterface_flooding = Slot(uri=MIXS['0000319'], name="SoilInterface_flooding", curie=MIXS.curie('0000319'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_flooding, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_gaseous_environment = Slot(uri=MIXS['0000558'], name="SoilInterface_gaseous_environment", curie=MIXS.curie('0000558'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_gaseous_environment, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="SoilInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_geo_loc_name, domain=SoilInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.SoilInterface_growth_facil = Slot(uri=MIXS['0001043'], name="SoilInterface_growth_facil", curie=MIXS.curie('0001043'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_growth_facil, domain=SoilInterface, range=Union[str, "GrowthFacilEnum"]) + +slots.SoilInterface_heavy_metals = Slot(uri=MIXS['0000652'], name="SoilInterface_heavy_metals", curie=MIXS.curie('0000652'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_heavy_metals, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SoilInterface_heavy_metals_meth = Slot(uri=MIXS['0000343'], name="SoilInterface_heavy_metals_meth", curie=MIXS.curie('0000343'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_heavy_metals_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="SoilInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_horizon_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_humidity_regm = Slot(uri=MIXS['0000568'], name="SoilInterface_humidity_regm", curie=MIXS.curie('0000568'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_humidity_regm, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_isotope_exposure = Slot(uri=NMDC_YAML['nmdc/isotope_exposure'], name="SoilInterface_isotope_exposure", curie=NMDC_YAML.curie('nmdc/isotope_exposure'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_isotope_exposure, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]; ([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.SoilInterface_lat_lon = Slot(uri=MIXS['0000009'], name="SoilInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_lat_lon, domain=SoilInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.SoilInterface_lbc_thirty = Slot(uri=NMDC_YAML['nmdc/lbc_thirty'], name="SoilInterface_lbc_thirty", curie=NMDC_YAML.curie('nmdc/lbc_thirty'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_lbc_thirty, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_lbceq = Slot(uri=NMDC_YAML['nmdc/lbceq'], name="SoilInterface_lbceq", curie=NMDC_YAML.curie('nmdc/lbceq'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_lbceq, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_light_regm = Slot(uri=MIXS['0000569'], name="SoilInterface_light_regm", curie=MIXS.curie('0000569'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_light_regm, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilInterface_link_class_info = Slot(uri=MIXS['0000329'], name="SoilInterface_link_class_info", curie=MIXS.curie('0000329'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_link_class_info, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_link_climate_info = Slot(uri=MIXS['0000328'], name="SoilInterface_link_climate_info", curie=MIXS.curie('0000328'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_link_climate_info, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_local_class = Slot(uri=MIXS['0000330'], name="SoilInterface_local_class", curie=MIXS.curie('0000330'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_local_class, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_local_class_meth = Slot(uri=MIXS['0000331'], name="SoilInterface_local_class_meth", curie=MIXS.curie('0000331'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_local_class_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_manganese = Slot(uri=NMDC_YAML['nmdc/manganese'], name="SoilInterface_manganese", curie=NMDC_YAML.curie('nmdc/manganese'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_manganese, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_micro_biomass_c_meth = Slot(uri=NMDC_YAML['nmdc/micro_biomass_c_meth'], name="SoilInterface_micro_biomass_c_meth", curie=NMDC_YAML.curie('nmdc/micro_biomass_c_meth'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_micro_biomass_c_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_micro_biomass_meth = Slot(uri=MIXS['0000339'], name="SoilInterface_micro_biomass_meth", curie=MIXS.curie('0000339'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_micro_biomass_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_micro_biomass_n_meth = Slot(uri=NMDC_YAML['nmdc/micro_biomass_n_meth'], name="SoilInterface_micro_biomass_n_meth", curie=NMDC_YAML.curie('nmdc/micro_biomass_n_meth'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_micro_biomass_n_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_microbial_biomass = Slot(uri=MIXS['0000650'], name="SoilInterface_microbial_biomass", curie=MIXS.curie('0000650'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_microbial_biomass, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_microbial_biomass_c = Slot(uri=NMDC_YAML['nmdc/microbial_biomass_c'], name="SoilInterface_microbial_biomass_c", curie=NMDC_YAML.curie('nmdc/microbial_biomass_c'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_microbial_biomass_c, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilInterface_microbial_biomass_n = Slot(uri=NMDC_YAML['nmdc/microbial_biomass_n'], name="SoilInterface_microbial_biomass_n", curie=NMDC_YAML.curie('nmdc/microbial_biomass_n'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_microbial_biomass_n, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilInterface_misc_param = Slot(uri=MIXS['0000752'], name="SoilInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_misc_param, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.SoilInterface_nitrate_nitrogen = Slot(uri=NMDC_YAML['nmdc/nitrate_nitrogen'], name="SoilInterface_nitrate_nitrogen", curie=NMDC_YAML.curie('nmdc/nitrate_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_nitrate_nitrogen, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_nitrite_nitrogen = Slot(uri=NMDC_YAML['nmdc/nitrite_nitrogen'], name="SoilInterface_nitrite_nitrogen", curie=NMDC_YAML.curie('nmdc/nitrite_nitrogen'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_nitrite_nitrogen, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_non_microb_biomass = Slot(uri=NMDC_YAML['nmdc/non_microb_biomass'], name="SoilInterface_non_microb_biomass", curie=NMDC_YAML.curie('nmdc/non_microb_biomass'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_non_microb_biomass, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.SoilInterface_non_microb_biomass_method = Slot(uri=NMDC_YAML['nmdc/non_microb_biomass_method'], name="SoilInterface_non_microb_biomass_method", curie=NMDC_YAML.curie('nmdc/non_microb_biomass_method'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_non_microb_biomass_method, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_org_matter = Slot(uri=MIXS['0000204'], name="SoilInterface_org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_org_matter, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_org_nitro = Slot(uri=MIXS['0000205'], name="SoilInterface_org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_org_nitro, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_org_nitro_method = Slot(uri=NMDC_YAML['nmdc/org_nitro_method'], name="SoilInterface_org_nitro_method", curie=NMDC_YAML.curie('nmdc/org_nitro_method'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_org_nitro_method, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_other_treatment = Slot(uri=NMDC_YAML['nmdc/other_treatment'], name="SoilInterface_other_treatment", curie=NMDC_YAML.curie('nmdc/other_treatment'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_other_treatment, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="SoilInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_oxy_stat_samp, domain=SoilInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.SoilInterface_ph = Slot(uri=MIXS['0001001'], name="SoilInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ph, domain=SoilInterface, range=Optional[float]) + +slots.SoilInterface_ph_meth = Slot(uri=MIXS['0001106'], name="SoilInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_ph_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_phosphate = Slot(uri=MIXS['0000505'], name="SoilInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_phosphate, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_prev_land_use_meth = Slot(uri=MIXS['0000316'], name="SoilInterface_prev_land_use_meth", curie=MIXS.curie('0000316'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_prev_land_use_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_previous_land_use = Slot(uri=MIXS['0000315'], name="SoilInterface_previous_land_use", curie=MIXS.curie('0000315'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_previous_land_use, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+;([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.SoilInterface_profile_position = Slot(uri=MIXS['0001084'], name="SoilInterface_profile_position", curie=MIXS.curie('0001084'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_profile_position, domain=SoilInterface, range=Optional[Union[str, "ProfilePositionEnum"]]) + +slots.SoilInterface_salinity = Slot(uri=MIXS['0000183'], name="SoilInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_salinity, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_salinity_meth = Slot(uri=MIXS['0000341'], name="SoilInterface_salinity_meth", curie=MIXS.curie('0000341'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_salinity_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="SoilInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_samp_collec_device, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="SoilInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_samp_collec_method, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="SoilInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_samp_mat_process, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_samp_size = Slot(uri=MIXS['0000001'], name="SoilInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_samp_size, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="SoilInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_samp_store_temp, domain=SoilInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="SoilInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_sample_link, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.SoilInterface_season_precpt = Slot(uri=MIXS['0000645'], name="SoilInterface_season_precpt", curie=MIXS.curie('0000645'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_season_precpt, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_season_temp = Slot(uri=MIXS['0000643'], name="SoilInterface_season_temp", curie=MIXS.curie('0000643'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_season_temp, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_sieving = Slot(uri=MIXS['0000322'], name="SoilInterface_sieving", curie=MIXS.curie('0000322'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_sieving, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_size_frac_low = Slot(uri=MIXS['0000735'], name="SoilInterface_size_frac_low", curie=MIXS.curie('0000735'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_size_frac_low, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_size_frac_up = Slot(uri=MIXS['0000736'], name="SoilInterface_size_frac_up", curie=MIXS.curie('0000736'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_size_frac_up, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_slope_aspect = Slot(uri=MIXS['0000647'], name="SoilInterface_slope_aspect", curie=MIXS.curie('0000647'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_slope_aspect, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_slope_gradient = Slot(uri=MIXS['0000646'], name="SoilInterface_slope_gradient", curie=MIXS.curie('0000646'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_slope_gradient, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_soil_horizon = Slot(uri=MIXS['0001082'], name="SoilInterface_soil_horizon", curie=MIXS.curie('0001082'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_soil_horizon, domain=SoilInterface, range=Optional[Union[str, "SoilHorizonEnum"]]) + +slots.SoilInterface_soil_text_measure = Slot(uri=MIXS['0000335'], name="SoilInterface_soil_text_measure", curie=MIXS.curie('0000335'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_soil_text_measure, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_soil_texture_meth = Slot(uri=MIXS['0000336'], name="SoilInterface_soil_texture_meth", curie=MIXS.curie('0000336'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_soil_texture_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_soil_type = Slot(uri=MIXS['0000332'], name="SoilInterface_soil_type", curie=MIXS.curie('0000332'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_soil_type, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.SoilInterface_soil_type_meth = Slot(uri=MIXS['0000334'], name="SoilInterface_soil_type_meth", curie=MIXS.curie('0000334'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_soil_type_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="SoilInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_specific_ecosystem, domain=SoilInterface, range=Optional[Union[str, "SpecificEcosystemEnum"]]) + +slots.SoilInterface_start_date_inc = Slot(uri=NMDC_YAML['nmdc/start_date_inc'], name="SoilInterface_start_date_inc", curie=NMDC_YAML.curie('nmdc/start_date_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_start_date_inc, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SoilInterface_start_time_inc = Slot(uri=NMDC_YAML['nmdc/start_time_inc'], name="SoilInterface_start_time_inc", curie=NMDC_YAML.curie('nmdc/start_time_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_start_time_inc, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) + +slots.SoilInterface_store_cond = Slot(uri=MIXS['0000327'], name="SoilInterface_store_cond", curie=MIXS.curie('0000327'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_store_cond, domain=SoilInterface, range=Union[str, "StoreCondEnum"]) + +slots.SoilInterface_temp = Slot(uri=MIXS['0000113'], name="SoilInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_temp, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_tillage = Slot(uri=MIXS['0001081'], name="SoilInterface_tillage", curie=MIXS.curie('0001081'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tillage, domain=SoilInterface, range=Optional[Union[Union[str, "TillageEnum"], List[Union[str, "TillageEnum"]]]]) + +slots.SoilInterface_tot_carb = Slot(uri=MIXS['0000525'], name="SoilInterface_tot_carb", curie=MIXS.curie('0000525'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_carb, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_tot_nitro_cont_meth = Slot(uri=MIXS['0000338'], name="SoilInterface_tot_nitro_cont_meth", curie=MIXS.curie('0000338'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_nitro_cont_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_tot_nitro_content = Slot(uri=MIXS['0000530'], name="SoilInterface_tot_nitro_content", curie=MIXS.curie('0000530'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_nitro_content, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_tot_org_c_meth = Slot(uri=MIXS['0000337'], name="SoilInterface_tot_org_c_meth", curie=MIXS.curie('0000337'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_org_c_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_tot_org_carb = Slot(uri=MIXS['0000533'], name="SoilInterface_tot_org_carb", curie=MIXS.curie('0000533'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_org_carb, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_tot_phosp = Slot(uri=MIXS['0000117'], name="SoilInterface_tot_phosp", curie=MIXS.curie('0000117'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_tot_phosp, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_water_cont_soil_meth = Slot(uri=MIXS['0000323'], name="SoilInterface_water_cont_soil_meth", curie=MIXS.curie('0000323'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_water_cont_soil_meth, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_water_content = Slot(uri=MIXS['0000185'], name="SoilInterface_water_content", curie=MIXS.curie('0000185'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_water_content, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$')) + +slots.SoilInterface_watering_regm = Slot(uri=MIXS['0000591'], name="SoilInterface_watering_regm", curie=MIXS.curie('0000591'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_watering_regm, domain=SoilInterface, range=Optional[str]) + +slots.SoilInterface_zinc = Slot(uri=NMDC_YAML['nmdc/zinc'], name="SoilInterface_zinc", curie=NMDC_YAML.curie('nmdc/zinc'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_zinc, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.SoilInterface_organism_count = Slot(uri=MIXS['0000103'], name="SoilInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.SoilInterface_organism_count, domain=SoilInterface, range=Optional[str], + pattern=re.compile(r'^(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other)\|)*(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other))$')) + +slots.WastewaterSludgeInterface_alkalinity = Slot(uri=MIXS['0000421'], name="WastewaterSludgeInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_alkalinity, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_biochem_oxygen_dem = Slot(uri=MIXS['0000653'], name="WastewaterSludgeInterface_biochem_oxygen_dem", curie=MIXS.curie('0000653'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_biochem_oxygen_dem, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_chem_administration = Slot(uri=MIXS['0000751'], name="WastewaterSludgeInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_chem_administration, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.WastewaterSludgeInterface_chem_oxygen_dem = Slot(uri=MIXS['0000656'], name="WastewaterSludgeInterface_chem_oxygen_dem", curie=MIXS.curie('0000656'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_chem_oxygen_dem, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_collection_date = Slot(uri=MIXS['0000011'], name="WastewaterSludgeInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_collection_date, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.WastewaterSludgeInterface_depth = Slot(uri=MIXS['0000018'], name="WastewaterSludgeInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_depth, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.WastewaterSludgeInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="WastewaterSludgeInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ecosystem, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="WastewaterSludgeInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ecosystem_category, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="WastewaterSludgeInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ecosystem_subtype, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="WastewaterSludgeInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ecosystem_type, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_efficiency_percent = Slot(uri=MIXS['0000657'], name="WastewaterSludgeInterface_efficiency_percent", curie=MIXS.curie('0000657'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_efficiency_percent, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_elev = Slot(uri=MIXS['0000093'], name="WastewaterSludgeInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_elev, domain=WastewaterSludgeInterface, range=float) + +slots.WastewaterSludgeInterface_emulsions = Slot(uri=MIXS['0000660'], name="WastewaterSludgeInterface_emulsions", curie=MIXS.curie('0000660'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_emulsions, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="WastewaterSludgeInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_env_broad_scale, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WastewaterSludgeInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="WastewaterSludgeInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_env_local_scale, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WastewaterSludgeInterface_env_medium = Slot(uri=MIXS['0000014'], name="WastewaterSludgeInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_env_medium, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WastewaterSludgeInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="WastewaterSludgeInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_env_package, domain=WastewaterSludgeInterface, range=str) + +slots.WastewaterSludgeInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="WastewaterSludgeInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_experimental_factor, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_gaseous_substances = Slot(uri=MIXS['0000661'], name="WastewaterSludgeInterface_gaseous_substances", curie=MIXS.curie('0000661'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_gaseous_substances, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="WastewaterSludgeInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_geo_loc_name, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$')) + +slots.WastewaterSludgeInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="WastewaterSludgeInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_horizon_meth, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_indust_eff_percent = Slot(uri=MIXS['0000662'], name="WastewaterSludgeInterface_indust_eff_percent", curie=MIXS.curie('0000662'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_indust_eff_percent, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_inorg_particles = Slot(uri=MIXS['0000664'], name="WastewaterSludgeInterface_inorg_particles", curie=MIXS.curie('0000664'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_inorg_particles, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_lat_lon = Slot(uri=MIXS['0000009'], name="WastewaterSludgeInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_lat_lon, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$')) + +slots.WastewaterSludgeInterface_misc_param = Slot(uri=MIXS['0000752'], name="WastewaterSludgeInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_misc_param, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_nitrate = Slot(uri=MIXS['0000425'], name="WastewaterSludgeInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_nitrate, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_org_particles = Slot(uri=MIXS['0000665'], name="WastewaterSludgeInterface_org_particles", curie=MIXS.curie('0000665'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_org_particles, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_organism_count = Slot(uri=MIXS['0000103'], name="WastewaterSludgeInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_organism_count, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$')) + +slots.WastewaterSludgeInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="WastewaterSludgeInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_oxy_stat_samp, domain=WastewaterSludgeInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.WastewaterSludgeInterface_perturbation = Slot(uri=MIXS['0000754'], name="WastewaterSludgeInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_perturbation, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_ph = Slot(uri=MIXS['0001001'], name="WastewaterSludgeInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ph, domain=WastewaterSludgeInterface, range=Optional[float]) + +slots.WastewaterSludgeInterface_ph_meth = Slot(uri=MIXS['0001106'], name="WastewaterSludgeInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_ph_meth, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_phosphate = Slot(uri=MIXS['0000505'], name="WastewaterSludgeInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_phosphate, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_pre_treatment = Slot(uri=MIXS['0000348'], name="WastewaterSludgeInterface_pre_treatment", curie=MIXS.curie('0000348'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_pre_treatment, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_primary_treatment = Slot(uri=MIXS['0000349'], name="WastewaterSludgeInterface_primary_treatment", curie=MIXS.curie('0000349'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_primary_treatment, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_reactor_type = Slot(uri=MIXS['0000350'], name="WastewaterSludgeInterface_reactor_type", curie=MIXS.curie('0000350'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_reactor_type, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_salinity = Slot(uri=MIXS['0000183'], name="WastewaterSludgeInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_salinity, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="WastewaterSludgeInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_collec_device, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="WastewaterSludgeInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_collec_method, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="WastewaterSludgeInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_mat_process, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_samp_size = Slot(uri=MIXS['0000001'], name="WastewaterSludgeInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_size, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.WastewaterSludgeInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="WastewaterSludgeInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_store_dur, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="WastewaterSludgeInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_store_loc, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="WastewaterSludgeInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_samp_store_temp, domain=WastewaterSludgeInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="WastewaterSludgeInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_sample_link, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.WastewaterSludgeInterface_secondary_treatment = Slot(uri=MIXS['0000351'], name="WastewaterSludgeInterface_secondary_treatment", curie=MIXS.curie('0000351'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_secondary_treatment, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_sewage_type = Slot(uri=MIXS['0000215'], name="WastewaterSludgeInterface_sewage_type", curie=MIXS.curie('0000215'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_sewage_type, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_size_frac = Slot(uri=MIXS['0000017'], name="WastewaterSludgeInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_size_frac, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_sludge_retent_time = Slot(uri=MIXS['0000669'], name="WastewaterSludgeInterface_sludge_retent_time", curie=MIXS.curie('0000669'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_sludge_retent_time, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_sodium = Slot(uri=MIXS['0000428'], name="WastewaterSludgeInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_sodium, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_soluble_inorg_mat = Slot(uri=MIXS['0000672'], name="WastewaterSludgeInterface_soluble_inorg_mat", curie=MIXS.curie('0000672'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_soluble_inorg_mat, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_soluble_org_mat = Slot(uri=MIXS['0000673'], name="WastewaterSludgeInterface_soluble_org_mat", curie=MIXS.curie('0000673'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_soluble_org_mat, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="WastewaterSludgeInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_specific_ecosystem, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_suspend_solids = Slot(uri=MIXS['0000150'], name="WastewaterSludgeInterface_suspend_solids", curie=MIXS.curie('0000150'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_suspend_solids, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WastewaterSludgeInterface_temp = Slot(uri=MIXS['0000113'], name="WastewaterSludgeInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_temp, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_tertiary_treatment = Slot(uri=MIXS['0000352'], name="WastewaterSludgeInterface_tertiary_treatment", curie=MIXS.curie('0000352'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_tertiary_treatment, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WastewaterSludgeInterface_tot_nitro = Slot(uri=MIXS['0000102'], name="WastewaterSludgeInterface_tot_nitro", curie=MIXS.curie('0000102'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_tot_nitro, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_tot_phosphate = Slot(uri=MIXS['0000689'], name="WastewaterSludgeInterface_tot_phosphate", curie=MIXS.curie('0000689'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_tot_phosphate, domain=WastewaterSludgeInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WastewaterSludgeInterface_wastewater_type = Slot(uri=MIXS['0000353'], name="WastewaterSludgeInterface_wastewater_type", curie=MIXS.curie('0000353'), + model_uri=NMDC_SUB_SCHEMA.WastewaterSludgeInterface_wastewater_type, domain=WastewaterSludgeInterface, range=Optional[str]) + +slots.WaterInterface_alkalinity = Slot(uri=MIXS['0000421'], name="WaterInterface_alkalinity", curie=MIXS.curie('0000421'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_alkalinity, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_alkalinity_method = Slot(uri=MIXS['0000298'], name="WaterInterface_alkalinity_method", curie=MIXS.curie('0000298'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_alkalinity_method, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_alkyl_diethers = Slot(uri=MIXS['0000490'], name="WaterInterface_alkyl_diethers", curie=MIXS.curie('0000490'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_alkyl_diethers, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_aminopept_act = Slot(uri=MIXS['0000172'], name="WaterInterface_aminopept_act", curie=MIXS.curie('0000172'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_aminopept_act, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_ammonium = Slot(uri=MIXS['0000427'], name="WaterInterface_ammonium", curie=MIXS.curie('0000427'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ammonium, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_atmospheric_data = Slot(uri=MIXS['0001097'], name="WaterInterface_atmospheric_data", curie=MIXS.curie('0001097'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_atmospheric_data, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_bac_prod = Slot(uri=MIXS['0000683'], name="WaterInterface_bac_prod", curie=MIXS.curie('0000683'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_bac_prod, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_bac_resp = Slot(uri=MIXS['0000684'], name="WaterInterface_bac_resp", curie=MIXS.curie('0000684'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_bac_resp, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_bacteria_carb_prod = Slot(uri=MIXS['0000173'], name="WaterInterface_bacteria_carb_prod", curie=MIXS.curie('0000173'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_bacteria_carb_prod, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_biomass = Slot(uri=MIXS['0000174'], name="WaterInterface_biomass", curie=MIXS.curie('0000174'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_biomass, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_bishomohopanol = Slot(uri=MIXS['0000175'], name="WaterInterface_bishomohopanol", curie=MIXS.curie('0000175'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_bishomohopanol, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_bromide = Slot(uri=MIXS['0000176'], name="WaterInterface_bromide", curie=MIXS.curie('0000176'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_bromide, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_calcium = Slot(uri=MIXS['0000432'], name="WaterInterface_calcium", curie=MIXS.curie('0000432'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_calcium, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_carb_nitro_ratio = Slot(uri=MIXS['0000310'], name="WaterInterface_carb_nitro_ratio", curie=MIXS.curie('0000310'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_carb_nitro_ratio, domain=WaterInterface, range=Optional[float], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_chem_administration = Slot(uri=MIXS['0000751'], name="WaterInterface_chem_administration", curie=MIXS.curie('0000751'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_chem_administration, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.WaterInterface_chloride = Slot(uri=MIXS['0000429'], name="WaterInterface_chloride", curie=MIXS.curie('0000429'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_chloride, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_chlorophyll = Slot(uri=MIXS['0000177'], name="WaterInterface_chlorophyll", curie=MIXS.curie('0000177'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_chlorophyll, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_collection_date = Slot(uri=MIXS['0000011'], name="WaterInterface_collection_date", curie=MIXS.curie('0000011'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_collection_date, domain=WaterInterface, range=str, + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.WaterInterface_conduc = Slot(uri=MIXS['0000692'], name="WaterInterface_conduc", curie=MIXS.curie('0000692'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_conduc, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_density = Slot(uri=MIXS['0000435'], name="WaterInterface_density", curie=MIXS.curie('0000435'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_density, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_depth = Slot(uri=MIXS['0000018'], name="WaterInterface_depth", curie=MIXS.curie('0000018'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_depth, domain=WaterInterface, range=str, + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$')) + +slots.WaterInterface_diether_lipids = Slot(uri=MIXS['0000178'], name="WaterInterface_diether_lipids", curie=MIXS.curie('0000178'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diether_lipids, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_diss_carb_dioxide = Slot(uri=MIXS['0000436'], name="WaterInterface_diss_carb_dioxide", curie=MIXS.curie('0000436'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_carb_dioxide, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_hydrogen = Slot(uri=MIXS['0000179'], name="WaterInterface_diss_hydrogen", curie=MIXS.curie('0000179'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_hydrogen, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_inorg_carb = Slot(uri=MIXS['0000434'], name="WaterInterface_diss_inorg_carb", curie=MIXS.curie('0000434'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_inorg_carb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_inorg_nitro = Slot(uri=MIXS['0000698'], name="WaterInterface_diss_inorg_nitro", curie=MIXS.curie('0000698'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_inorg_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_inorg_phosp = Slot(uri=MIXS['0000106'], name="WaterInterface_diss_inorg_phosp", curie=MIXS.curie('0000106'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_inorg_phosp, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_org_carb = Slot(uri=MIXS['0000433'], name="WaterInterface_diss_org_carb", curie=MIXS.curie('0000433'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_org_carb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_org_nitro = Slot(uri=MIXS['0000162'], name="WaterInterface_diss_org_nitro", curie=MIXS.curie('0000162'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_org_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_diss_oxygen = Slot(uri=MIXS['0000119'], name="WaterInterface_diss_oxygen", curie=MIXS.curie('0000119'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_diss_oxygen, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_down_par = Slot(uri=MIXS['0000703'], name="WaterInterface_down_par", curie=MIXS.curie('0000703'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_down_par, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_ecosystem = Slot(uri=NMDC_YAML['nmdc/ecosystem'], name="WaterInterface_ecosystem", curie=NMDC_YAML.curie('nmdc/ecosystem'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ecosystem, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_ecosystem_category = Slot(uri=NMDC_YAML['nmdc/ecosystem_category'], name="WaterInterface_ecosystem_category", curie=NMDC_YAML.curie('nmdc/ecosystem_category'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ecosystem_category, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_ecosystem_subtype = Slot(uri=NMDC_YAML['nmdc/ecosystem_subtype'], name="WaterInterface_ecosystem_subtype", curie=NMDC_YAML.curie('nmdc/ecosystem_subtype'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ecosystem_subtype, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_ecosystem_type = Slot(uri=NMDC_YAML['nmdc/ecosystem_type'], name="WaterInterface_ecosystem_type", curie=NMDC_YAML.curie('nmdc/ecosystem_type'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ecosystem_type, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_elev = Slot(uri=MIXS['0000093'], name="WaterInterface_elev", curie=MIXS.curie('0000093'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_elev, domain=WaterInterface, range=Optional[float]) + +slots.WaterInterface_env_broad_scale = Slot(uri=MIXS['0000012'], name="WaterInterface_env_broad_scale", curie=MIXS.curie('0000012'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_env_broad_scale, domain=WaterInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WaterInterface_env_local_scale = Slot(uri=MIXS['0000013'], name="WaterInterface_env_local_scale", curie=MIXS.curie('0000013'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_env_local_scale, domain=WaterInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WaterInterface_env_medium = Slot(uri=MIXS['0000014'], name="WaterInterface_env_medium", curie=MIXS.curie('0000014'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_env_medium, domain=WaterInterface, range=str, + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$')) + +slots.WaterInterface_env_package = Slot(uri=NMDC_YAML['nmdc/env_package'], name="WaterInterface_env_package", curie=NMDC_YAML.curie('nmdc/env_package'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_env_package, domain=WaterInterface, range=str) + +slots.WaterInterface_experimental_factor = Slot(uri=MIXS['0000008'], name="WaterInterface_experimental_factor", curie=MIXS.curie('0000008'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_experimental_factor, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_fluor = Slot(uri=MIXS['0000704'], name="WaterInterface_fluor", curie=MIXS.curie('0000704'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_fluor, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_geo_loc_name = Slot(uri=MIXS['0000010'], name="WaterInterface_geo_loc_name", curie=MIXS.curie('0000010'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_geo_loc_name, domain=WaterInterface, range=str) + +slots.WaterInterface_glucosidase_act = Slot(uri=MIXS['0000137'], name="WaterInterface_glucosidase_act", curie=MIXS.curie('0000137'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_glucosidase_act, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_horizon_meth = Slot(uri=MIXS['0000321'], name="WaterInterface_horizon_meth", curie=MIXS.curie('0000321'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_horizon_meth, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_lat_lon = Slot(uri=MIXS['0000009'], name="WaterInterface_lat_lon", curie=MIXS.curie('0000009'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_lat_lon, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$')) + +slots.WaterInterface_light_intensity = Slot(uri=MIXS['0000706'], name="WaterInterface_light_intensity", curie=MIXS.curie('0000706'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_light_intensity, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_mean_frict_vel = Slot(uri=MIXS['0000498'], name="WaterInterface_mean_frict_vel", curie=MIXS.curie('0000498'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_mean_frict_vel, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_mean_peak_frict_vel = Slot(uri=MIXS['0000502'], name="WaterInterface_mean_peak_frict_vel", curie=MIXS.curie('0000502'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_mean_peak_frict_vel, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_misc_param = Slot(uri=MIXS['0000752'], name="WaterInterface_misc_param", curie=MIXS.curie('0000752'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_misc_param, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_n_alkanes = Slot(uri=MIXS['0000503'], name="WaterInterface_n_alkanes", curie=MIXS.curie('0000503'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_n_alkanes, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_nitrate = Slot(uri=MIXS['0000425'], name="WaterInterface_nitrate", curie=MIXS.curie('0000425'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_nitrate, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_nitrite = Slot(uri=MIXS['0000426'], name="WaterInterface_nitrite", curie=MIXS.curie('0000426'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_nitrite, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_nitro = Slot(uri=MIXS['0000504'], name="WaterInterface_nitro", curie=MIXS.curie('0000504'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_org_carb = Slot(uri=MIXS['0000508'], name="WaterInterface_org_carb", curie=MIXS.curie('0000508'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_org_carb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_org_matter = Slot(uri=MIXS['0000204'], name="WaterInterface_org_matter", curie=MIXS.curie('0000204'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_org_matter, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_org_nitro = Slot(uri=MIXS['0000205'], name="WaterInterface_org_nitro", curie=MIXS.curie('0000205'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_org_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_organism_count = Slot(uri=MIXS['0000103'], name="WaterInterface_organism_count", curie=MIXS.curie('0000103'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_organism_count, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other)\|)*(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other))$')) + +slots.WaterInterface_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="WaterInterface_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_oxy_stat_samp, domain=WaterInterface, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.WaterInterface_part_org_carb = Slot(uri=MIXS['0000515'], name="WaterInterface_part_org_carb", curie=MIXS.curie('0000515'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_part_org_carb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_part_org_nitro = Slot(uri=MIXS['0000719'], name="WaterInterface_part_org_nitro", curie=MIXS.curie('0000719'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_part_org_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_perturbation = Slot(uri=MIXS['0000754'], name="WaterInterface_perturbation", curie=MIXS.curie('0000754'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_perturbation, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_petroleum_hydrocarb = Slot(uri=MIXS['0000516'], name="WaterInterface_petroleum_hydrocarb", curie=MIXS.curie('0000516'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_petroleum_hydrocarb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_ph = Slot(uri=MIXS['0001001'], name="WaterInterface_ph", curie=MIXS.curie('0001001'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ph, domain=WaterInterface, range=Optional[float]) + +slots.WaterInterface_ph_meth = Slot(uri=MIXS['0001106'], name="WaterInterface_ph_meth", curie=MIXS.curie('0001106'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_ph_meth, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_phaeopigments = Slot(uri=MIXS['0000180'], name="WaterInterface_phaeopigments", curie=MIXS.curie('0000180'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_phaeopigments, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_phosphate = Slot(uri=MIXS['0000505'], name="WaterInterface_phosphate", curie=MIXS.curie('0000505'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_phosphate, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_phosplipid_fatt_acid = Slot(uri=MIXS['0000181'], name="WaterInterface_phosplipid_fatt_acid", curie=MIXS.curie('0000181'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_phosplipid_fatt_acid, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$')) + +slots.WaterInterface_photon_flux = Slot(uri=MIXS['0000725'], name="WaterInterface_photon_flux", curie=MIXS.curie('0000725'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_photon_flux, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_potassium = Slot(uri=MIXS['0000430'], name="WaterInterface_potassium", curie=MIXS.curie('0000430'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_potassium, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_pressure = Slot(uri=MIXS['0000412'], name="WaterInterface_pressure", curie=MIXS.curie('0000412'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_pressure, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_primary_prod = Slot(uri=MIXS['0000728'], name="WaterInterface_primary_prod", curie=MIXS.curie('0000728'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_primary_prod, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_redox_potential = Slot(uri=MIXS['0000182'], name="WaterInterface_redox_potential", curie=MIXS.curie('0000182'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_redox_potential, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_salinity = Slot(uri=MIXS['0000183'], name="WaterInterface_salinity", curie=MIXS.curie('0000183'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_salinity, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_samp_collec_device = Slot(uri=MIXS['0000002'], name="WaterInterface_samp_collec_device", curie=MIXS.curie('0000002'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_collec_device, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_samp_collec_method = Slot(uri=MIXS['0001225'], name="WaterInterface_samp_collec_method", curie=MIXS.curie('0001225'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_collec_method, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_samp_mat_process = Slot(uri=MIXS['0000016'], name="WaterInterface_samp_mat_process", curie=MIXS.curie('0000016'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_mat_process, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_samp_size = Slot(uri=MIXS['0000001'], name="WaterInterface_samp_size", curie=MIXS.curie('0000001'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_size, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_samp_store_dur = Slot(uri=MIXS['0000116'], name="WaterInterface_samp_store_dur", curie=MIXS.curie('0000116'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_store_dur, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_samp_store_loc = Slot(uri=MIXS['0000755'], name="WaterInterface_samp_store_loc", curie=MIXS.curie('0000755'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_store_loc, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_samp_store_temp = Slot(uri=MIXS['0000110'], name="WaterInterface_samp_store_temp", curie=MIXS.curie('0000110'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_samp_store_temp, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_sample_link = Slot(uri=NMDC_YAML['nmdc/sample_link'], name="WaterInterface_sample_link", curie=NMDC_YAML.curie('nmdc/sample_link'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_sample_link, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.WaterInterface_silicate = Slot(uri=MIXS['0000184'], name="WaterInterface_silicate", curie=MIXS.curie('0000184'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_silicate, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_size_frac = Slot(uri=MIXS['0000017'], name="WaterInterface_size_frac", curie=MIXS.curie('0000017'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_size_frac, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_size_frac_low = Slot(uri=MIXS['0000735'], name="WaterInterface_size_frac_low", curie=MIXS.curie('0000735'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_size_frac_low, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_size_frac_up = Slot(uri=MIXS['0000736'], name="WaterInterface_size_frac_up", curie=MIXS.curie('0000736'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_size_frac_up, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_sodium = Slot(uri=MIXS['0000428'], name="WaterInterface_sodium", curie=MIXS.curie('0000428'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_sodium, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_soluble_react_phosp = Slot(uri=MIXS['0000738'], name="WaterInterface_soluble_react_phosp", curie=MIXS.curie('0000738'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_soluble_react_phosp, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_specific_ecosystem = Slot(uri=NMDC_YAML['nmdc/specific_ecosystem'], name="WaterInterface_specific_ecosystem", curie=NMDC_YAML.curie('nmdc/specific_ecosystem'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_specific_ecosystem, domain=WaterInterface, range=Optional[str]) + +slots.WaterInterface_sulfate = Slot(uri=MIXS['0000423'], name="WaterInterface_sulfate", curie=MIXS.curie('0000423'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_sulfate, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_sulfide = Slot(uri=MIXS['0000424'], name="WaterInterface_sulfide", curie=MIXS.curie('0000424'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_sulfide, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_suspend_part_matter = Slot(uri=MIXS['0000741'], name="WaterInterface_suspend_part_matter", curie=MIXS.curie('0000741'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_suspend_part_matter, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_temp = Slot(uri=MIXS['0000113'], name="WaterInterface_temp", curie=MIXS.curie('0000113'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_temp, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_tidal_stage = Slot(uri=MIXS['0000750'], name="WaterInterface_tidal_stage", curie=MIXS.curie('0000750'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tidal_stage, domain=WaterInterface, range=Optional[Union[str, "TidalStageEnum"]]) + +slots.WaterInterface_tot_depth_water_col = Slot(uri=MIXS['0000634'], name="WaterInterface_tot_depth_water_col", curie=MIXS.curie('0000634'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tot_depth_water_col, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_tot_diss_nitro = Slot(uri=MIXS['0000744'], name="WaterInterface_tot_diss_nitro", curie=MIXS.curie('0000744'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tot_diss_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_tot_inorg_nitro = Slot(uri=MIXS['0000745'], name="WaterInterface_tot_inorg_nitro", curie=MIXS.curie('0000745'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tot_inorg_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_tot_nitro = Slot(uri=MIXS['0000102'], name="WaterInterface_tot_nitro", curie=MIXS.curie('0000102'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tot_nitro, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_tot_part_carb = Slot(uri=MIXS['0000747'], name="WaterInterface_tot_part_carb", curie=MIXS.curie('0000747'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_tot_part_carb, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_turbidity = Slot(uri=MIXS['0000191'], name="WaterInterface_turbidity", curie=MIXS.curie('0000191'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_turbidity, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.WaterInterface_water_current = Slot(uri=MIXS['0000203'], name="WaterInterface_water_current", curie=MIXS.curie('0000203'), + model_uri=NMDC_SUB_SCHEMA.WaterInterface_water_current, domain=WaterInterface, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+ +\S.*$')) + +slots.DhMultiviewCommonColumnsMixin_analysis_type = Slot(uri=NMDC_YAML['nmdc/analysis_type'], name="DhMultiviewCommonColumnsMixin_analysis_type", curie=NMDC_YAML.curie('nmdc/analysis_type'), + model_uri=NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin_analysis_type, domain=None, range=Union[Union[str, "AnalysisTypeEnum"], List[Union[str, "AnalysisTypeEnum"]]]) + +slots.DhMultiviewCommonColumnsMixin_samp_name = Slot(uri=MIXS['0001107'], name="DhMultiviewCommonColumnsMixin_samp_name", curie=MIXS.curie('0001107'), + model_uri=NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin_samp_name, domain=None, range=Union[str, DhMultiviewCommonColumnsMixinSampName]) + +slots.DhMultiviewCommonColumnsMixin_source_mat_id = Slot(uri=MIXS['0000026'], name="DhMultiviewCommonColumnsMixin_source_mat_id", curie=MIXS.curie('0000026'), + model_uri=NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin_source_mat_id, domain=None, range=Optional[str], + pattern=re.compile(r'[^\:\n\r]+\:[^\:\n\r]+')) + +slots.DhMultiviewCommonColumnsMixin_oxy_stat_samp = Slot(uri=MIXS['0000753'], name="DhMultiviewCommonColumnsMixin_oxy_stat_samp", curie=MIXS.curie('0000753'), + model_uri=NMDC_SUB_SCHEMA.DhMultiviewCommonColumnsMixin_oxy_stat_samp, domain=None, range=Optional[Union[str, "OxyStatSampEnum"]]) + +slots.SoilMixsInspiredMixin_collection_date_inc = Slot(uri=NMDC_YAML['nmdc/collection_date_inc'], name="SoilMixsInspiredMixin_collection_date_inc", curie=NMDC_YAML.curie('nmdc/collection_date_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_collection_date_inc, domain=None, range=Optional[str], + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SoilMixsInspiredMixin_collection_time = Slot(uri=NMDC_YAML['nmdc/collection_time'], name="SoilMixsInspiredMixin_collection_time", curie=NMDC_YAML.curie('nmdc/collection_time'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_collection_time, domain=None, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) + +slots.SoilMixsInspiredMixin_collection_time_inc = Slot(uri=NMDC_YAML['nmdc/collection_time_inc'], name="SoilMixsInspiredMixin_collection_time_inc", curie=NMDC_YAML.curie('nmdc/collection_time_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_collection_time_inc, domain=None, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) + +slots.SoilMixsInspiredMixin_experimental_factor_other = Slot(uri=NMDC_YAML['nmdc/experimental_factor_other'], name="SoilMixsInspiredMixin_experimental_factor_other", curie=NMDC_YAML.curie('nmdc/experimental_factor_other'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_experimental_factor_other, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_filter_method = Slot(uri=NMDC_YAML['nmdc/filter_method'], name="SoilMixsInspiredMixin_filter_method", curie=NMDC_YAML.curie('nmdc/filter_method'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_filter_method, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_isotope_exposure = Slot(uri=NMDC_YAML['nmdc/isotope_exposure'], name="SoilMixsInspiredMixin_isotope_exposure", curie=NMDC_YAML.curie('nmdc/isotope_exposure'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_isotope_exposure, domain=None, range=Optional[str], + pattern=re.compile(r'^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]; ([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$')) + +slots.SoilMixsInspiredMixin_micro_biomass_c_meth = Slot(uri=NMDC_YAML['nmdc/micro_biomass_c_meth'], name="SoilMixsInspiredMixin_micro_biomass_c_meth", curie=NMDC_YAML.curie('nmdc/micro_biomass_c_meth'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_micro_biomass_c_meth, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_micro_biomass_n_meth = Slot(uri=NMDC_YAML['nmdc/micro_biomass_n_meth'], name="SoilMixsInspiredMixin_micro_biomass_n_meth", curie=NMDC_YAML.curie('nmdc/micro_biomass_n_meth'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_micro_biomass_n_meth, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_microbial_biomass_c = Slot(uri=NMDC_YAML['nmdc/microbial_biomass_c'], name="SoilMixsInspiredMixin_microbial_biomass_c", curie=NMDC_YAML.curie('nmdc/microbial_biomass_c'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_microbial_biomass_c, domain=None, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilMixsInspiredMixin_microbial_biomass_n = Slot(uri=NMDC_YAML['nmdc/microbial_biomass_n'], name="SoilMixsInspiredMixin_microbial_biomass_n", curie=NMDC_YAML.curie('nmdc/microbial_biomass_n'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_microbial_biomass_n, domain=None, range=Optional[str], + pattern=re.compile(r'^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$')) + +slots.SoilMixsInspiredMixin_non_microb_biomass = Slot(uri=NMDC_YAML['nmdc/non_microb_biomass'], name="SoilMixsInspiredMixin_non_microb_biomass", curie=NMDC_YAML.curie('nmdc/non_microb_biomass'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_non_microb_biomass, domain=None, range=Optional[str], + pattern=re.compile(r'^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$')) + +slots.SoilMixsInspiredMixin_non_microb_biomass_method = Slot(uri=NMDC_YAML['nmdc/non_microb_biomass_method'], name="SoilMixsInspiredMixin_non_microb_biomass_method", curie=NMDC_YAML.curie('nmdc/non_microb_biomass_method'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_non_microb_biomass_method, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_org_nitro_method = Slot(uri=NMDC_YAML['nmdc/org_nitro_method'], name="SoilMixsInspiredMixin_org_nitro_method", curie=NMDC_YAML.curie('nmdc/org_nitro_method'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_org_nitro_method, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_other_treatment = Slot(uri=NMDC_YAML['nmdc/other_treatment'], name="SoilMixsInspiredMixin_other_treatment", curie=NMDC_YAML.curie('nmdc/other_treatment'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_other_treatment, domain=None, range=Optional[str]) + +slots.SoilMixsInspiredMixin_start_date_inc = Slot(uri=NMDC_YAML['nmdc/start_date_inc'], name="SoilMixsInspiredMixin_start_date_inc", curie=NMDC_YAML.curie('nmdc/start_date_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_start_date_inc, domain=None, range=Optional[str], + pattern=re.compile(r'^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$')) + +slots.SoilMixsInspiredMixin_start_time_inc = Slot(uri=NMDC_YAML['nmdc/start_time_inc'], name="SoilMixsInspiredMixin_start_time_inc", curie=NMDC_YAML.curie('nmdc/start_time_inc'), + model_uri=NMDC_SUB_SCHEMA.SoilMixsInspiredMixin_start_time_inc, domain=None, range=Optional[str], + pattern=re.compile(r'^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$')) \ No newline at end of file diff --git a/src/nmdc_submission_schema/schema/nmdc_submission_schema.yaml b/src/nmdc_submission_schema/schema/nmdc_submission_schema.yaml new file mode 100644 index 00000000..b716e376 --- /dev/null +++ b/src/nmdc_submission_schema/schema/nmdc_submission_schema.yaml @@ -0,0 +1,46663 @@ +name: nmdc_submission_schema +description: Schema for creating Data Harmonizer interfaces for biosamples based on MIxS and other standards +id: https://example.com/nmdc_submission_schema +version: 0.0.0 +prefixes: + UO: + prefix_prefix: UO + prefix_reference: http://purl.obolibrary.org/obo/UO_ + qud: + prefix_prefix: qud + prefix_reference: http://qudt.org/1.1/schema/qudt# + xsd: + prefix_prefix: xsd + prefix_reference: http://www.w3.org/2001/XMLSchema# + nmdc_sub_schema: + prefix_prefix: nmdc_sub_schema + prefix_reference: https://example.com/nmdc_sub_schema/ + linkml: + prefix_prefix: linkml + prefix_reference: https://w3id.org/linkml/ + shex: + prefix_prefix: shex + prefix_reference: http://www.w3.org/ns/shex# + schema: + prefix_prefix: schema + prefix_reference: http://schema.org/ + EFO: + prefix_prefix: EFO + prefix_reference: http://identifiers.org/efo/ + ISA: + prefix_prefix: ISA + prefix_reference: https://unknown.to.linter.org/ + NCIT: + prefix_prefix: NCIT + prefix_reference: http://purl.obolibrary.org/obo/NCIT_ + OBI: + prefix_prefix: OBI + prefix_reference: http://purl.obolibrary.org/obo/OBI_ + bare: + prefix_prefix: bare + prefix_reference: https://unknown.to.linter.org/ + nmdc: + prefix_prefix: nmdc + prefix_reference: https://w3id.org/nmdc/ + nmdc_yaml: + prefix_prefix: nmdc_yaml + prefix_reference: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/ + prov: + prefix_prefix: prov + prefix_reference: http://www.w3.org/ns/prov# + rdf: + prefix_prefix: rdf + prefix_reference: http://www.w3.org/1999/02/22-rdf-syntax-ns# + rdfs: + prefix_prefix: rdfs + prefix_reference: http://www.w3.org/2000/01/rdf-schema# + skos: + prefix_prefix: skos + prefix_reference: http://www.w3.org/2004/02/skos/core# + NCBITaxon: + prefix_prefix: NCBITaxon + prefix_reference: http://purl.obolibrary.org/obo/NCBITaxon_ + jgi: + prefix_prefix: jgi + prefix_reference: https://unknown.to.linter.org/ + dcterms: + prefix_prefix: dcterms + prefix_reference: http://purl.org/dc/terms/ + KEGG.COMPOUND: + prefix_prefix: KEGG.COMPOUND + prefix_reference: http://identifiers.org/kegg.compound/ + UniProtKB: + prefix_prefix: UniProtKB + prefix_reference: https://identifiers.org/uniprot/ + biolink: + prefix_prefix: biolink + prefix_reference: https://w3id.org/biolink/vocab/ + gtpo: + prefix_prefix: gtpo + prefix_reference: https://unknown.to.linter.org/ + sio: + prefix_prefix: sio + prefix_reference: http://semanticscience.org/resource/SIO_ + wgs84: + prefix_prefix: wgs84 + prefix_reference: http://www.w3.org/2003/01/geo/wgs84_pos# + GOLD: + prefix_prefix: GOLD + prefix_reference: http://identifiers.org/gold/ + CHEBI: + prefix_prefix: CHEBI + prefix_reference: http://purl.obolibrary.org/obo/CHEBI_ + CHMO: + prefix_prefix: CHMO + prefix_reference: http://purl.obolibrary.org/obo/CHMO_ + MIXS: + prefix_prefix: MIXS + prefix_reference: https://w3id.org/mixs/ + MIXS_yaml: + prefix_prefix: MIXS_yaml + prefix_reference: https://raw.githubusercontent.com/microbiomedata/mixs/main/model/schema/ + COG: + prefix_prefix: COG + prefix_reference: https://unknown.to.linter.org/ + EC: + prefix_prefix: EC + prefix_reference: https://unknown.to.linter.org/ + GO: + prefix_prefix: GO + prefix_reference: http://purl.obolibrary.org/obo/GO_ + KEGG.ORTHOLOGY: + prefix_prefix: KEGG.ORTHOLOGY + prefix_reference: http://identifiers.org/kegg.orthology/ + KEGG.REACTION: + prefix_prefix: KEGG.REACTION + prefix_reference: http://identifiers.org/kegg.reaction/ + KEGG_PATHWAY: + prefix_prefix: KEGG_PATHWAY + prefix_reference: http://identifiers.org/kegg.pathway/ + MetaCyc: + prefix_prefix: MetaCyc + prefix_reference: https://identifiers.org/metacyc.reaction/ + MetaNetX: + prefix_prefix: MetaNetX + prefix_reference: https://unknown.to.linter.org/ + RHEA: + prefix_prefix: RHEA + prefix_reference: http://identifiers.org/rhea/ + RetroRules: + prefix_prefix: RetroRules + prefix_reference: https://unknown.to.linter.org/ + SEED: + prefix_prefix: SEED + prefix_reference: http://identifiers.org/seed/ +default_prefix: nmdc_sub_schema +default_range: string +subsets: + sample subset: + name: sample subset + description: Subset consisting of entities linked to the processing of samples. Currently, this subset consists of study, omics process, and biosample. + from_schema: https://example.com/nmdc_submission_schema + data object subset: + name: data object subset + description: Subset consisting of the data objects that either inputs or outputs of processes or workflows. + from_schema: https://example.com/nmdc_submission_schema + workflow subset: + name: workflow subset + description: Subset consisting of just the workflow execution activities + from_schema: https://example.com/nmdc_submission_schema + environment: + name: environment + from_schema: https://example.com/nmdc_submission_schema + investigation: + name: investigation + from_schema: https://example.com/nmdc_submission_schema + nucleic acid sequence source: + name: nucleic acid sequence source + from_schema: https://example.com/nmdc_submission_schema + sequencing: + name: sequencing + from_schema: https://example.com/nmdc_submission_schema + mixs_environmental_triad: + name: mixs_environmental_triad + title: MIxS Environmental Triad + from_schema: https://example.com/nmdc_submission_schema + mixs extension: + name: mixs extension + from_schema: https://example.com/nmdc_submission_schema + checklist: + name: checklist + description: A MIxS checklist. These can be combined with packages + from_schema: https://example.com/nmdc_submission_schema + package: + name: package + description: A MIxS package. These can be combined with checklists + from_schema: https://example.com/nmdc_submission_schema + checklist_package_combination: + name: checklist_package_combination + description: A combination of a checklist and a package + from_schema: https://example.com/nmdc_submission_schema +types: + unit: + name: unit + description: a string representation of a unit + notes: + - why isn't this picked up from the nmdc.yaml import? + from_schema: https://example.com/nmdc_submission_schema + mappings: + - qud:Unit + - UO:0000000 + base: str + uri: xsd:string + decimal degree: + name: decimal degree + description: a float representation of a degree of rotation + from_schema: https://example.com/nmdc_submission_schema + base: float + uri: xsd:decimal + language code: + name: language code + description: a string representation of a language + from_schema: https://example.com/nmdc_submission_schema + base: str + uri: xsd:language + string: + name: string + description: A character string + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Text + base: str + uri: xsd:string + integer: + name: integer + description: An integer + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Integer + base: int + uri: xsd:integer + boolean: + name: boolean + description: A binary (true or false) value + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Boolean + base: Bool + uri: xsd:boolean + repr: bool + float: + name: float + description: A real number that conforms to the xsd:float specification + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Float + base: float + uri: xsd:float + double: + name: double + description: A real number that conforms to the xsd:double specification + from_schema: https://example.com/nmdc_submission_schema + close_mappings: + - schema:Float + base: float + uri: xsd:double + decimal: + name: decimal + description: A real number with arbitrary precision that conforms to the xsd:decimal specification + from_schema: https://example.com/nmdc_submission_schema + broad_mappings: + - schema:Number + base: Decimal + uri: xsd:decimal + time: + name: time + description: A time object represents a (local) time of day, independent of any particular day + notes: + - URI is dateTime because OWL reasoners do not work with straight date or time + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Time + base: XSDTime + uri: xsd:dateTime + repr: str + date: + name: date + description: a date (year, month and day) in an idealized calendar + notes: + - URI is dateTime because OWL reasoners don't work with straight date or time + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:Date + base: XSDDate + uri: xsd:date + repr: str + datetime: + name: datetime + description: The combination of a date and time + from_schema: https://example.com/nmdc_submission_schema + exact_mappings: + - schema:DateTime + base: XSDDateTime + uri: xsd:dateTime + repr: str + date_or_datetime: + name: date_or_datetime + description: Either a date or a datetime + from_schema: https://example.com/nmdc_submission_schema + base: str + uri: linkml:DateOrDatetime + repr: str + uriorcurie: + name: uriorcurie + description: a URI or a CURIE + from_schema: https://example.com/nmdc_submission_schema + base: URIorCURIE + uri: xsd:anyURI + repr: str + curie: + name: curie + conforms_to: https://www.w3.org/TR/curie/ + description: a compact URI + comments: + - in RDF serializations this MUST be expanded to a URI + - in non-RDF serializations MAY be serialized as the compact representation + from_schema: https://example.com/nmdc_submission_schema + base: Curie + uri: xsd:string + repr: str + uri: + name: uri + conforms_to: https://www.ietf.org/rfc/rfc3987.txt + description: a complete URI + comments: + - in RDF serializations a slot with range of uri is treated as a literal or type xsd:anyURI unless it is an identifier or a reference to an identifier, in which case it is translated directly to a node + from_schema: https://example.com/nmdc_submission_schema + close_mappings: + - schema:URL + base: URI + uri: xsd:anyURI + repr: str + ncname: + name: ncname + description: Prefix part of CURIE + from_schema: https://example.com/nmdc_submission_schema + base: NCName + uri: xsd:string + repr: str + objectidentifier: + name: objectidentifier + description: A URI or CURIE that represents an object in the model. + comments: + - Used for inheritence and type checking + from_schema: https://example.com/nmdc_submission_schema + base: ElementIdentifier + uri: shex:iri + repr: str + nodeidentifier: + name: nodeidentifier + description: A URI, CURIE or BNODE that represents a node in a model. + from_schema: https://example.com/nmdc_submission_schema + base: NodeIdentifier + uri: shex:nonLiteral + repr: str +enums: + AnalysisTypeEnum: + name: AnalysisTypeEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + metabolomics: + text: metabolomics + description: placeholder PV descr + metagenomics: + text: metagenomics + description: placeholder PV descr + metaproteomics: + text: metaproteomics + description: placeholder PV descr + metatranscriptomics: + text: metatranscriptomics + description: placeholder PV descr + natural organic matter: + text: natural organic matter + description: placeholder PV descr + BioticRelationshipEnum: + name: BioticRelationshipEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + commensalism: + text: commensalism + description: placeholder PV descr + annotations: + sntc_name: + tag: sntc_name + value: samp_biotic_relationship + notes: + - 'biotic_relationship_enum: free living' + - parasitism + - commensalism + - symbiotic + - mutualism + see_also: + - https://genomicsstandardsconsortium.github.io/mixs/biotic_relationship_enum/ + free living: + text: free living + description: placeholder PV descr + mutualism: + text: mutualism + description: placeholder PV descr + parasitism: + text: parasitism + description: placeholder PV descr + symbiotic: + text: symbiotic + description: placeholder enum descr + JgiContTypeEnum: + name: JgiContTypeEnum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + plate: + text: plate + tube: + text: tube + DnaSampleFormatEnum: + name: DnaSampleFormatEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 10 mM Tris-HCl: + text: 10 mM Tris-HCl + description: placeholder PV descr + DNAStable: + text: DNAStable + description: placeholder PV descr + Ethanol: + text: Ethanol + description: placeholder PV descr + Low EDTA TE: + text: Low EDTA TE + description: placeholder PV descr + MDA reaction buffer: + text: MDA reaction buffer + description: placeholder PV descr + PBS: + text: PBS + description: placeholder PV descr + Pellet: + text: Pellet + description: placeholder PV descr + RNAStable: + text: RNAStable + description: placeholder PV descr + TE: + text: TE + description: placeholder PV descr + Water: + text: Water + description: placeholder PV descr + EcosystemCategoryEnum: + name: EcosystemCategoryEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Terrestrial: + text: Terrestrial + description: placeholder PV descr + see_also: + - https://github.com/microbiomedata/sheets_and_friends/issues/22 + EcosystemEnum: + name: EcosystemEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Environmental: + text: Environmental + description: placeholder PV descr + EcosystemSubtypeEnum: + name: EcosystemSubtypeEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Biocrust: + text: Biocrust + description: placeholder PV descr + Biofilm: + text: Biofilm + description: placeholder PV descr + Bulk soil: + text: Bulk soil + description: placeholder PV descr + Clay: + text: Clay + description: placeholder PV descr + Floodplain: + text: Floodplain + description: placeholder PV descr + Fossil: + text: Fossil + description: placeholder PV descr + Glacier: + text: Glacier + description: placeholder PV descr + Loam: + text: Loam + description: placeholder PV descr + Mineral horizon: + text: Mineral horizon + description: placeholder PV descr + Nature reserve: + text: Nature reserve + description: placeholder PV descr + Organic layer: + text: Organic layer + description: placeholder PV descr + Paddy field/soil: + text: Paddy field/soil + description: placeholder PV descr + Pasture: + text: Pasture + description: placeholder PV descr + Peat: + text: Peat + description: placeholder PV descr + Ranch: + text: Ranch + description: placeholder PV descr + Sand: + text: Sand + description: placeholder PV descr + Silt: + text: Silt + description: placeholder PV descr + Soil crust: + text: Soil crust + description: placeholder PV descr + Unclassified: + text: Unclassified + description: placeholder PV descr + Watershed: + text: Watershed + description: placeholder PV descr + Wetlands: + text: Wetlands + description: placeholder PV descr + EcosystemTypeEnum: + name: EcosystemTypeEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Soil: + text: Soil + description: placeholder PV descr + EnvPackageEnum: + name: EnvPackageEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + soil: + text: soil + description: placeholder PV descr + notes: + - I don't think this is a MIxS term anymore, so it make sense to define it here + GrowthFacilEnum: + name: GrowthFacilEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + experimental_garden: + text: experimental_garden + description: placeholder PV descr + annotations: + sntc_name: + tag: sntc_name + value: growth_facility + notes: + - string range according to MIxS + see_also: + - https://genomicsstandardsconsortium.github.io/mixs/growth_facil/ + field: + text: field + description: placeholder PV descr + field_incubation: + text: field_incubation + description: placeholder PV descr + glasshouse: + text: glasshouse + description: placeholder PV descr + greenhouse: + text: greenhouse + description: placeholder PV descr + growth_chamber: + text: growth_chamber + description: placeholder PV descr + lab_incubation: + text: lab_incubation + description: placeholder PV descr + open_top_chamber: + text: open_top_chamber + description: placeholder PV descr + other: + text: other + description: placeholder PV descr + RelToOxygenEnum: + name: RelToOxygenEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + aerobe: + text: aerobe + description: placeholder PV descr + annotations: + sntc_name: + tag: sntc_name + value: oxygen_relationship + see_also: + - https://genomicsstandardsconsortium.github.io/mixs/rel_to_oxygen_enum/ + anaerobe: + text: anaerobe + description: placeholder PV descr + facultative: + text: facultative + description: placeholder PV descr + microaerophilic: + text: microaerophilic + description: placeholder PV descr + microanaerobe: + text: microanaerobe + description: placeholder PV descr + obligate aerobe: + text: obligate aerobe + description: placeholder PV descr + obligate anaerobe: + text: obligate anaerobe + description: placeholder PV descr + RnaSampleFormatEnum: + name: RnaSampleFormatEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 10 mM Tris-HCl: + text: 10 mM Tris-HCl + description: placeholder PV descr + DNAStable: + text: DNAStable + description: placeholder PV descr + Ethanol: + text: Ethanol + description: placeholder PV descr + Low EDTA TE: + text: Low EDTA TE + description: placeholder PV descr + MDA reaction buffer: + text: MDA reaction buffer + description: placeholder PV descr + PBS: + text: PBS + description: placeholder PV descr + Pellet: + text: Pellet + description: placeholder PV descr + RNAStable: + text: RNAStable + description: placeholder PV descr + TE: + text: TE + description: placeholder PV descr + Water: + text: Water + description: placeholder PV descr + SampleTypeEnum: + name: SampleTypeEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + soil: + text: soil + description: placeholder PV descr + water_extract_soil: + text: water_extract_soil + description: placeholder PV descr + SpecificEcosystemEnum: + name: SpecificEcosystemEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Agricultural: + text: Agricultural + description: placeholder PV descr + Agricultural land: + text: Agricultural land + description: placeholder PV descr + Agricultural soil: + text: Agricultural soil + description: placeholder PV descr + Alpine: + text: Alpine + description: placeholder PV descr + Bog: + text: Bog + description: placeholder PV descr + Boreal forest: + text: Boreal forest + description: placeholder PV descr + Contaminated: + text: Contaminated + description: placeholder PV descr + Desert: + text: Desert + description: placeholder PV descr + Farm: + text: Farm + description: placeholder PV descr + Forest soil: + text: Forest soil + description: placeholder PV descr + Forest Soil: + text: Forest Soil + description: placeholder PV descr + Grasslands: + text: Grasslands + description: placeholder PV descr + Meadow: + text: Meadow + description: placeholder PV descr + Mine: + text: Mine + description: placeholder PV descr + Mine drainage: + text: Mine drainage + description: placeholder PV descr + Oil-contaminated: + text: Oil-contaminated + description: placeholder PV descr + Orchard soil: + text: Orchard soil + description: placeholder PV descr + Permafrost: + text: Permafrost + description: placeholder PV descr + Riparian soil: + text: Riparian soil + description: placeholder PV descr + River: + text: River + description: placeholder PV descr + Shrubland: + text: Shrubland + description: placeholder PV descr + Tropical rainforest: + text: Tropical rainforest + description: placeholder PV descr + Unclassified: + text: Unclassified + description: placeholder PV descr + Uranium contaminated: + text: Uranium contaminated + description: placeholder PV descr + StoreCondEnum: + name: StoreCondEnum + description: placeholder enum descr + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + fresh: + text: fresh + description: placeholder PV descr + annotations: + sntc_name: + tag: sntc_name + value: storage_condt + notes: + - see samp_store_dur, samp_store_loc, samp_store_temp and store_cond (which takes a string range according to mixs-source). + frozen: + text: frozen + description: placeholder PV descr + lyophilized: + text: lyophilized + description: placeholder PV descr + other: + text: other + description: placeholder PV descr + YesNoEnum: + name: YesNoEnum + description: replaces DnaDnaseEnum and DnaseRnaEnum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 'no': + text: 'no' + 'yes': + text: 'yes' + EnvBroadScaleSoilEnum: + name: EnvBroadScaleSoilEnum + description: placeholder enum descr, DO NOT SORT + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + arid biome [ENVO:01001838]: + text: arid biome [ENVO:01001838] + description: placeholder PV descr, DO NOT SORT + subalpine biome [ENVO:01001837]: + text: subalpine biome [ENVO:01001837] + description: placeholder PV descr, DO NOT SORT + montane biome [ENVO:01001836]: + text: montane biome [ENVO:01001836] + description: placeholder PV descr, DO NOT SORT + __montane savanna biome [ENVO:01000223]: + text: __montane savanna biome [ENVO:01000223] + description: placeholder PV descr, DO NOT SORT + __montane shrubland biome [ENVO:01000216]: + text: __montane shrubland biome [ENVO:01000216] + description: placeholder PV descr, DO NOT SORT + alpine biome [ENVO:01001835]: + text: alpine biome [ENVO:01001835] + description: placeholder PV descr, DO NOT SORT + __alpine tundra biome [ENVO:01001505]: + text: __alpine tundra biome [ENVO:01001505] + description: placeholder PV descr, DO NOT SORT + subpolar biome [ENVO:01001834]: + text: subpolar biome [ENVO:01001834] + description: placeholder PV descr, DO NOT SORT + subtropical biome [ENVO:01001832]: + text: subtropical biome [ENVO:01001832] + description: placeholder PV descr, DO NOT SORT + __mediterranean biome [ENVO:01001833]: + text: __mediterranean biome [ENVO:01001833] + description: placeholder PV descr, DO NOT SORT + ____mediterranean savanna biome [ENVO:01000229]: + text: ____mediterranean savanna biome [ENVO:01000229] + description: placeholder PV descr, DO NOT SORT + ____mediterranean shrubland biome [ENVO:01000217]: + text: ____mediterranean shrubland biome [ENVO:01000217] + description: placeholder PV descr, DO NOT SORT + ____mediterranean woodland biome [ENVO:01000208]: + text: ____mediterranean woodland biome [ENVO:01000208] + description: placeholder PV descr, DO NOT SORT + __subtropical woodland biome [ENVO:01000222]: + text: __subtropical woodland biome [ENVO:01000222] + description: placeholder PV descr, DO NOT SORT + __subtropical shrubland biome [ENVO:01000213]: + text: __subtropical shrubland biome [ENVO:01000213] + description: placeholder PV descr, DO NOT SORT + __subtropical savanna biome [ENVO:01000187]: + text: __subtropical savanna biome [ENVO:01000187] + description: placeholder PV descr, DO NOT SORT + temperate biome [ENVO:01001831]: + text: temperate biome [ENVO:01001831] + description: placeholder PV descr, DO NOT SORT + __temperate woodland biome [ENVO:01000221]: + text: __temperate woodland biome [ENVO:01000221] + description: placeholder PV descr, DO NOT SORT + __temperate shrubland biome [ENVO:01000215]: + text: __temperate shrubland biome [ENVO:01000215] + description: placeholder PV descr, DO NOT SORT + __temperate savanna biome [ENVO:01000189]: + text: __temperate savanna biome [ENVO:01000189] + description: placeholder PV descr, DO NOT SORT + tropical biome [ENVO:01001830]: + text: tropical biome [ENVO:01001830] + description: placeholder PV descr, DO NOT SORT + __tropical woodland biome [ENVO:01000220]: + text: __tropical woodland biome [ENVO:01000220] + description: placeholder PV descr, DO NOT SORT + __tropical shrubland biome [ENVO:01000214]: + text: __tropical shrubland biome [ENVO:01000214] + description: placeholder PV descr, DO NOT SORT + __tropical savanna biome [ENVO:01000188]: + text: __tropical savanna biome [ENVO:01000188] + description: placeholder PV descr, DO NOT SORT + polar biome [ENVO:01000339]: + text: polar biome [ENVO:01000339] + description: placeholder PV descr, DO NOT SORT + terrestrial biome [ENVO:00000446]: + text: terrestrial biome [ENVO:00000446] + description: placeholder PV descr, DO NOT SORT + __anthropogenic terrestrial biome [ENVO:01000219]: + text: __anthropogenic terrestrial biome [ENVO:01000219] + description: placeholder PV descr, DO NOT SORT + ____dense settlement biome [ENVO:01000248]: + text: ____dense settlement biome [ENVO:01000248] + description: placeholder PV descr, DO NOT SORT + ______urban biome [ENVO:01000249]: + text: ______urban biome [ENVO:01000249] + description: placeholder PV descr, DO NOT SORT + ____rangeland biome [ENVO:01000247]: + text: ____rangeland biome [ENVO:01000247] + description: placeholder PV descr, DO NOT SORT + ____village biome [ENVO:01000246]: + text: ____village biome [ENVO:01000246] + description: placeholder PV descr, DO NOT SORT + __mangrove biome [ENVO:01000181]: + text: __mangrove biome [ENVO:01000181] + description: placeholder PV descr, DO NOT SORT + __tundra biome [ENVO:01000180]: + text: __tundra biome [ENVO:01000180] + description: placeholder PV descr, DO NOT SORT + ____alpine tundra biome [ENVO:01001505]: + text: ____alpine tundra biome [ENVO:01001505] + description: placeholder PV descr, DO NOT SORT + __shrubland biome [ENVO:01000176]: + text: __shrubland biome [ENVO:01000176] + description: placeholder PV descr, DO NOT SORT + ____tidal mangrove shrubland [ENVO:01001369]: + text: ____tidal mangrove shrubland [ENVO:01001369] + description: placeholder PV descr, DO NOT SORT + ____xeric shrubland biome [ENVO:01000218]: + text: ____xeric shrubland biome [ENVO:01000218] + description: placeholder PV descr, DO NOT SORT + ____montane shrubland biome [ENVO:01000216]: + text: ____montane shrubland biome [ENVO:01000216] + description: placeholder PV descr, DO NOT SORT + ____temperate shrubland biome [ENVO:01000215]: + text: ____temperate shrubland biome [ENVO:01000215] + description: placeholder PV descr, DO NOT SORT + ____tropical shrubland biome [ENVO:01000214]: + text: ____tropical shrubland biome [ENVO:01000214] + description: placeholder PV descr, DO NOT SORT + ____subtropical shrubland biome [ENVO:01000213]: + text: ____subtropical shrubland biome [ENVO:01000213] + description: placeholder PV descr, DO NOT SORT + ______mediterranean shrubland biome [ENVO:01000217]: + text: ______mediterranean shrubland biome [ENVO:01000217] + description: placeholder PV descr, DO NOT SORT + __woodland biome [ENVO:01000175]: + text: __woodland biome [ENVO:01000175] + description: placeholder PV descr, DO NOT SORT + ____subtropical woodland biome [ENVO:01000222]: + text: ____subtropical woodland biome [ENVO:01000222] + description: placeholder PV descr, DO NOT SORT + ______mediterranean woodland biome [ENVO:01000208]: + text: ______mediterranean woodland biome [ENVO:01000208] + description: placeholder PV descr, DO NOT SORT + ____temperate woodland biome [ENVO:01000221]: + text: ____temperate woodland biome [ENVO:01000221] + description: placeholder PV descr, DO NOT SORT + ____tropical woodland biome [ENVO:01000220]: + text: ____tropical woodland biome [ENVO:01000220] + description: placeholder PV descr, DO NOT SORT + ____savanna biome [ENVO:01000178]: + text: ____savanna biome [ENVO:01000178] + description: placeholder PV descr, DO NOT SORT + ______montane savanna biome [ENVO:01000223]: + text: ______montane savanna biome [ENVO:01000223] + description: placeholder PV descr, DO NOT SORT + ______flooded savanna biome [ENVO:01000190]: + text: ______flooded savanna biome [ENVO:01000190] + description: placeholder PV descr, DO NOT SORT + ______temperate savanna biome [ENVO:01000189]: + text: ______temperate savanna biome [ENVO:01000189] + description: placeholder PV descr, DO NOT SORT + ______tropical savanna biome [ENVO:01000188]: + text: ______tropical savanna biome [ENVO:01000188] + description: placeholder PV descr, DO NOT SORT + ______subtropical savanna biome [ENVO:01000187]: + text: ______subtropical savanna biome [ENVO:01000187] + description: placeholder PV descr, DO NOT SORT + ________mediterranean savanna biome [ENVO:01000229]: + text: ________mediterranean savanna biome [ENVO:01000229] + description: placeholder PV descr, DO NOT SORT + EnvMediumSoilEnum: + name: EnvMediumSoilEnum + description: placeholder enum descr, DO NOT SORT + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + pathogen-suppressive soil [ENVO:03600036]: + text: pathogen-suppressive soil [ENVO:03600036] + description: placeholder PV descr, DO NOT SORT + mangrove biome soil [ENVO:02000138]: + text: mangrove biome soil [ENVO:02000138] + description: placeholder PV descr, DO NOT SORT + surface soil [ENVO:02000059]: + text: surface soil [ENVO:02000059] + description: placeholder PV descr, DO NOT SORT + frost-susceptible soil [ENVO:01001638]: + text: frost-susceptible soil [ENVO:01001638] + description: placeholder PV descr, DO NOT SORT + bare soil [ENVO:01001616]: + text: bare soil [ENVO:01001616] + description: placeholder PV descr, DO NOT SORT + frozen soil [ENVO:01001526]: + text: frozen soil [ENVO:01001526] + description: placeholder PV descr, DO NOT SORT + __friable-frozen soil [ENVO:01001528]: + text: __friable-frozen soil [ENVO:01001528] + description: placeholder PV descr, DO NOT SORT + __plastic-frozen soil [ENVO:01001527]: + text: __plastic-frozen soil [ENVO:01001527] + description: placeholder PV descr, DO NOT SORT + __hard-frozen soil [ENVO:01001525]: + text: __hard-frozen soil [ENVO:01001525] + description: placeholder PV descr, DO NOT SORT + __frozen compost soil [ENVO:00005765]: + text: __frozen compost soil [ENVO:00005765] + description: placeholder PV descr, DO NOT SORT + __cryosol [ENVO:00002236]: + text: __cryosol [ENVO:00002236] + description: placeholder PV descr, DO NOT SORT + ultisol [ENVO:01001397]: + text: ultisol [ENVO:01001397] + description: placeholder PV descr, DO NOT SORT + __acrisol [ENVO:00002234]: + text: __acrisol [ENVO:00002234] + description: placeholder PV descr, DO NOT SORT + acidic soil [ENVO:01001185]: + text: acidic soil [ENVO:01001185] + description: placeholder PV descr, DO NOT SORT + bulk soil [ENVO:00005802]: + text: bulk soil [ENVO:00005802] + description: placeholder PV descr, DO NOT SORT + red soil [ENVO:00005790]: + text: red soil [ENVO:00005790] + description: placeholder PV descr, DO NOT SORT + upland soil [ENVO:00005786]: + text: upland soil [ENVO:00005786] + description: placeholder PV descr, DO NOT SORT + __mountain forest soil [ENVO:00005769]: + text: __mountain forest soil [ENVO:00005769] + description: placeholder PV descr, DO NOT SORT + __dune soil [ENVO:00002260]: + text: __dune soil [ENVO:00002260] + description: placeholder PV descr, DO NOT SORT + ornithogenic soil [ENVO:00005782]: + text: ornithogenic soil [ENVO:00005782] + description: placeholder PV descr, DO NOT SORT + heat stressed soil [ENVO:00005781]: + text: heat stressed soil [ENVO:00005781] + description: placeholder PV descr, DO NOT SORT + greenhouse soil [ENVO:00005780]: + text: greenhouse soil [ENVO:00005780] + description: placeholder PV descr, DO NOT SORT + tropical soil [ENVO:00005778]: + text: tropical soil [ENVO:00005778] + description: placeholder PV descr, DO NOT SORT + pasture soil [ENVO:00005773]: + text: pasture soil [ENVO:00005773] + description: placeholder PV descr, DO NOT SORT + muddy soil [ENVO:00005771]: + text: muddy soil [ENVO:00005771] + description: placeholder PV descr, DO NOT SORT + orchid soil [ENVO:00005768]: + text: orchid soil [ENVO:00005768] + description: placeholder PV descr, DO NOT SORT + manured soil [ENVO:00005767]: + text: manured soil [ENVO:00005767] + description: placeholder PV descr, DO NOT SORT + limed soil [ENVO:00005766]: + text: limed soil [ENVO:00005766] + description: placeholder PV descr, DO NOT SORT + pond soil [ENVO:00005764]: + text: pond soil [ENVO:00005764] + description: placeholder PV descr, DO NOT SORT + meadow soil [ENVO:00005761]: + text: meadow soil [ENVO:00005761] + description: placeholder PV descr, DO NOT SORT + burned soil [ENVO:00005760]: + text: burned soil [ENVO:00005760] + description: placeholder PV descr, DO NOT SORT + lawn soil [ENVO:00005756]: + text: lawn soil [ENVO:00005756] + description: placeholder PV descr, DO NOT SORT + field soil [ENVO:00005755]: + text: field soil [ENVO:00005755] + description: placeholder PV descr, DO NOT SORT + __paddy field soil [ENVO:00005740]: + text: __paddy field soil [ENVO:00005740] + description: placeholder PV descr, DO NOT SORT + ____peaty paddy field soil [ENVO:00005776]: + text: ____peaty paddy field soil [ENVO:00005776] + description: placeholder PV descr, DO NOT SORT + ____alluvial paddy field soil [ENVO:00005759]: + text: ____alluvial paddy field soil [ENVO:00005759] + description: placeholder PV descr, DO NOT SORT + fertilized soil [ENVO:00005754]: + text: fertilized soil [ENVO:00005754] + description: placeholder PV descr, DO NOT SORT + sawah soil [ENVO:00005752]: + text: sawah soil [ENVO:00005752] + description: placeholder PV descr, DO NOT SORT + jungle soil [ENVO:00005751]: + text: jungle soil [ENVO:00005751] + description: placeholder PV descr, DO NOT SORT + grassland soil [ENVO:00005750]: + text: grassland soil [ENVO:00005750] + description: placeholder PV descr, DO NOT SORT + __steppe soil [ENVO:00005777]: + text: __steppe soil [ENVO:00005777] + description: placeholder PV descr, DO NOT SORT + __savanna soil [ENVO:00005746]: + text: __savanna soil [ENVO:00005746] + description: placeholder PV descr, DO NOT SORT + farm soil [ENVO:00005749]: + text: farm soil [ENVO:00005749] + description: placeholder PV descr, DO NOT SORT + __rubber plantation soil [ENVO:00005788]: + text: __rubber plantation soil [ENVO:00005788] + description: placeholder PV descr, DO NOT SORT + __orchard soil [ENVO:00005772]: + text: __orchard soil [ENVO:00005772] + description: placeholder PV descr, DO NOT SORT + dry soil [ENVO:00005748]: + text: dry soil [ENVO:00005748] + description: placeholder PV descr, DO NOT SORT + compost soil [ENVO:00005747]: + text: compost soil [ENVO:00005747] + description: placeholder PV descr, DO NOT SORT + roadside soil [ENVO:00005743]: + text: roadside soil [ENVO:00005743] + description: placeholder PV descr, DO NOT SORT + arable soil [ENVO:00005742]: + text: arable soil [ENVO:00005742] + description: placeholder PV descr, DO NOT SORT + alpine soil [ENVO:00005741]: + text: alpine soil [ENVO:00005741] + description: placeholder PV descr, DO NOT SORT + alluvial soil [ENVO:00002871]: + text: alluvial soil [ENVO:00002871] + description: placeholder PV descr, DO NOT SORT + __alluvial paddy field soil [ENVO:00005759]: + text: __alluvial paddy field soil [ENVO:00005759] + description: placeholder PV descr, DO NOT SORT + __alluvial swamp soil [ENVO:00005758]: + text: __alluvial swamp soil [ENVO:00005758] + description: placeholder PV descr, DO NOT SORT + technosol [ENVO:00002275]: + text: technosol [ENVO:00002275] + description: placeholder PV descr, DO NOT SORT + stagnosol [ENVO:00002274]: + text: stagnosol [ENVO:00002274] + description: placeholder PV descr, DO NOT SORT + fluvisol [ENVO:00002273]: + text: fluvisol [ENVO:00002273] + description: placeholder PV descr, DO NOT SORT + garden soil [ENVO:00002263]: + text: garden soil [ENVO:00002263] + description: placeholder PV descr, DO NOT SORT + __vegetable garden soil [ENVO:00005779]: + text: __vegetable garden soil [ENVO:00005779] + description: placeholder PV descr, DO NOT SORT + __allotment garden soil [ENVO:00005744]: + text: __allotment garden soil [ENVO:00005744] + description: placeholder PV descr, DO NOT SORT + clay soil [ENVO:00002262]: + text: clay soil [ENVO:00002262] + description: placeholder PV descr, DO NOT SORT + forest soil [ENVO:00002261]: + text: forest soil [ENVO:00002261] + description: placeholder PV descr, DO NOT SORT + __eucalyptus forest soil [ENVO:00005787]: + text: __eucalyptus forest soil [ENVO:00005787] + description: placeholder PV descr, DO NOT SORT + __spruce forest soil [ENVO:00005784]: + text: __spruce forest soil [ENVO:00005784] + description: placeholder PV descr, DO NOT SORT + __leafy wood soil [ENVO:00005783]: + text: __leafy wood soil [ENVO:00005783] + description: placeholder PV descr, DO NOT SORT + __beech forest soil [ENVO:00005770]: + text: __beech forest soil [ENVO:00005770] + description: placeholder PV descr, DO NOT SORT + agricultural soil [ENVO:00002259]: + text: agricultural soil [ENVO:00002259] + description: placeholder PV descr, DO NOT SORT + __bluegrass field soil [ENVO:00005789]: + text: __bluegrass field soil [ENVO:00005789] + description: placeholder PV descr, DO NOT SORT + loam [ENVO:00002258]: + text: loam [ENVO:00002258] + description: placeholder PV descr, DO NOT SORT + __clay loam [ENVO:06105277]: + text: __clay loam [ENVO:06105277] + description: placeholder PV descr, DO NOT SORT + ____silty clay loam [ENVO:06105278]: + text: ____silty clay loam [ENVO:06105278] + description: placeholder PV descr, DO NOT SORT + ____sandy clay loam [ENVO:06105276]: + text: ____sandy clay loam [ENVO:06105276] + description: placeholder PV descr, DO NOT SORT + __silty loam [ENVO:06105275]: + text: __silty loam [ENVO:06105275] + description: placeholder PV descr, DO NOT SORT + __sandy loam [ENVO:06105274]: + text: __sandy loam [ENVO:06105274] + description: placeholder PV descr, DO NOT SORT + podzol [ENVO:00002257]: + text: podzol [ENVO:00002257] + description: placeholder PV descr, DO NOT SORT + regosol [ENVO:00002256]: + text: regosol [ENVO:00002256] + description: placeholder PV descr, DO NOT SORT + solonetz [ENVO:00002255]: + text: solonetz [ENVO:00002255] + description: placeholder PV descr, DO NOT SORT + vertisol [ENVO:00002254]: + text: vertisol [ENVO:00002254] + description: placeholder PV descr, DO NOT SORT + umbrisol [ENVO:00002253]: + text: umbrisol [ENVO:00002253] + description: placeholder PV descr, DO NOT SORT + solonchak [ENVO:00002252]: + text: solonchak [ENVO:00002252] + description: placeholder PV descr, DO NOT SORT + planosol [ENVO:00002251]: + text: planosol [ENVO:00002251] + description: placeholder PV descr, DO NOT SORT + plinthosol [ENVO:00002250]: + text: plinthosol [ENVO:00002250] + description: placeholder PV descr, DO NOT SORT + phaeozem [ENVO:00002249]: + text: phaeozem [ENVO:00002249] + description: placeholder PV descr, DO NOT SORT + luvisol [ENVO:00002248]: + text: luvisol [ENVO:00002248] + description: placeholder PV descr, DO NOT SORT + nitisol [ENVO:00002247]: + text: nitisol [ENVO:00002247] + description: placeholder PV descr, DO NOT SORT + ferralsol [ENVO:00002246]: + text: ferralsol [ENVO:00002246] + description: placeholder PV descr, DO NOT SORT + gypsisol [ENVO:00002245]: + text: gypsisol [ENVO:00002245] + description: placeholder PV descr, DO NOT SORT + gleysol [ENVO:00002244]: + text: gleysol [ENVO:00002244] + description: placeholder PV descr, DO NOT SORT + histosol [ENVO:00002243]: + text: histosol [ENVO:00002243] + description: placeholder PV descr, DO NOT SORT + __peat soil [ENVO:00005774]: + text: __peat soil [ENVO:00005774] + description: placeholder PV descr, DO NOT SORT + lixisol [ENVO:00002242]: + text: lixisol [ENVO:00002242] + description: placeholder PV descr, DO NOT SORT + leptosol [ENVO:00002241]: + text: leptosol [ENVO:00002241] + description: placeholder PV descr, DO NOT SORT + kastanozem [ENVO:00002240]: + text: kastanozem [ENVO:00002240] + description: placeholder PV descr, DO NOT SORT + calcisol [ENVO:00002239]: + text: calcisol [ENVO:00002239] + description: placeholder PV descr, DO NOT SORT + durisol [ENVO:00002238]: + text: durisol [ENVO:00002238] + description: placeholder PV descr, DO NOT SORT + chernozem [ENVO:00002237]: + text: chernozem [ENVO:00002237] + description: placeholder PV descr, DO NOT SORT + cambisol [ENVO:00002235]: + text: cambisol [ENVO:00002235] + description: placeholder PV descr, DO NOT SORT + albeluvisol [ENVO:00002233]: + text: albeluvisol [ENVO:00002233] + description: placeholder PV descr, DO NOT SORT + andosol [ENVO:00002232]: + text: andosol [ENVO:00002232] + description: placeholder PV descr, DO NOT SORT + __volcanic soil [ENVO:01001841]: + text: __volcanic soil [ENVO:01001841] + description: placeholder PV descr, DO NOT SORT + alisol [ENVO:00002231]: + text: alisol [ENVO:00002231] + description: placeholder PV descr, DO NOT SORT + anthrosol [ENVO:00002230]: + text: anthrosol [ENVO:00002230] + description: placeholder PV descr, DO NOT SORT + arenosol [ENVO:00002229]: + text: arenosol [ENVO:00002229] + description: placeholder PV descr, DO NOT SORT + EnvLocalScaleSoilEnum: + name: EnvLocalScaleSoilEnum + description: placeholder enum descr, DO NOT SORT + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + astronomical body part [ENVO:01000813]: + text: astronomical body part [ENVO:01000813] + description: placeholder PV descr, DO NOT SORT + __coast [ENVO:01000687]: + text: __coast [ENVO:01000687] + description: placeholder PV descr, DO NOT SORT + __solid astronomical body part [ENVO:00000191]: + text: __solid astronomical body part [ENVO:00000191] + description: placeholder PV descr, DO NOT SORT + ______landform [ENVO:01001886]: + text: ______landform [ENVO:01001886] + description: placeholder PV descr, DO NOT SORT + ______channel [ENVO:03000117]: + text: ______channel [ENVO:03000117] + description: placeholder PV descr, DO NOT SORT + ________tunnel [ENVO:00000068]: + text: ________tunnel [ENVO:00000068] + description: placeholder PV descr, DO NOT SORT + ______surface landform [ENVO:01001884]: + text: ______surface landform [ENVO:01001884] + description: placeholder PV descr, DO NOT SORT + ________desert [ENVO:01001357]: + text: ________desert [ENVO:01001357] + description: placeholder PV descr, DO NOT SORT + ________outcrop [ENVO:01000302]: + text: ________outcrop [ENVO:01000302] + description: placeholder PV descr, DO NOT SORT + ________boulder field [ENVO:00000537]: + text: ________boulder field [ENVO:00000537] + description: placeholder PV descr, DO NOT SORT + ________landfill [ENVO:00000533]: + text: ________landfill [ENVO:00000533] + description: placeholder PV descr, DO NOT SORT + ________hummock [ENVO:00000516]: + text: ________hummock [ENVO:00000516] + description: placeholder PV descr, DO NOT SORT + ________terrace [ENVO:00000508]: + text: ________terrace [ENVO:00000508] + description: placeholder PV descr, DO NOT SORT + ________peninsula [ENVO:00000305]: + text: ________peninsula [ENVO:00000305] + description: placeholder PV descr, DO NOT SORT + ________shore [ENVO:00000304]: + text: ________shore [ENVO:00000304] + description: placeholder PV descr, DO NOT SORT + __________lake shore [ENVO:00000382]: + text: __________lake shore [ENVO:00000382] + description: placeholder PV descr, DO NOT SORT + ________dry lake [ENVO:00000277]: + text: ________dry lake [ENVO:00000277] + description: placeholder PV descr, DO NOT SORT + ________karst [ENVO:00000175]: + text: ________karst [ENVO:00000175] + description: placeholder PV descr, DO NOT SORT + ________isthmus [ENVO:00000174]: + text: ________isthmus [ENVO:00000174] + description: placeholder PV descr, DO NOT SORT + ________badland [ENVO:00000127]: + text: ________badland [ENVO:00000127] + description: placeholder PV descr, DO NOT SORT + ________volcanic feature [ENVO:00000094]: + text: ________volcanic feature [ENVO:00000094] + description: placeholder PV descr, DO NOT SORT + __________volcanic cone [ENVO:00000398]: + text: __________volcanic cone [ENVO:00000398] + description: placeholder PV descr, DO NOT SORT + ____________tuff cone [ENVO:01000664]: + text: ____________tuff cone [ENVO:01000664] + description: placeholder PV descr, DO NOT SORT + ________beach [ENVO:00000091]: + text: ________beach [ENVO:00000091] + description: placeholder PV descr, DO NOT SORT + ________plain [ENVO:00000086]: + text: ________plain [ENVO:00000086] + description: placeholder PV descr, DO NOT SORT + ________cave [ENVO:00000067]: + text: ________cave [ENVO:00000067] + description: placeholder PV descr, DO NOT SORT + ________spring [ENVO:00000027]: + text: ________spring [ENVO:00000027] + description: placeholder PV descr, DO NOT SORT + ______slope [ENVO:00002000]: + text: ______slope [ENVO:00002000] + description: placeholder PV descr, DO NOT SORT + ________talus slope [ENVO:01000334]: + text: ________talus slope [ENVO:01000334] + description: placeholder PV descr, DO NOT SORT + ________hillside [ENVO:01000333]: + text: ________hillside [ENVO:01000333] + description: placeholder PV descr, DO NOT SORT + ________levee [ENVO:00000178]: + text: ________levee [ENVO:00000178] + description: placeholder PV descr, DO NOT SORT + ________bank [ENVO:00000141]: + text: ________bank [ENVO:00000141] + description: placeholder PV descr, DO NOT SORT + ________cliff [ENVO:00000087]: + text: ________cliff [ENVO:00000087] + description: placeholder PV descr, DO NOT SORT + ______peak [ENVO:00000480]: + text: ______peak [ENVO:00000480] + description: placeholder PV descr, DO NOT SORT + ______depressed landform [ENVO:00000309]: + text: ______depressed landform [ENVO:00000309] + description: placeholder PV descr, DO NOT SORT + ________geographic basin [ENVO:03000015]: + text: ________geographic basin [ENVO:03000015] + description: placeholder PV descr, DO NOT SORT + __________valley [ENVO:00000100]: + text: __________valley [ENVO:00000100] + description: placeholder PV descr, DO NOT SORT + ____________canyon [ENVO:00000169]: + text: ____________canyon [ENVO:00000169] + description: placeholder PV descr, DO NOT SORT + ____________dry valley [ENVO:00000128]: + text: ____________dry valley [ENVO:00000128] + description: placeholder PV descr, DO NOT SORT + ____________glacial valley [ENVO:00000248]: + text: ____________glacial valley [ENVO:00000248] + description: placeholder PV descr, DO NOT SORT + ________pit [ENVO:01001871]: + text: ________pit [ENVO:01001871] + description: placeholder PV descr, DO NOT SORT + ________trench [ENVO:01000649]: + text: ________trench [ENVO:01000649] + description: placeholder PV descr, DO NOT SORT + ________swale [ENVO:00000543]: + text: ________swale [ENVO:00000543] + description: placeholder PV descr, DO NOT SORT + ________crater [ENVO:00000514]: + text: ________crater [ENVO:00000514] + description: placeholder PV descr, DO NOT SORT + __________impact crater [ENVO:01001071]: + text: __________impact crater [ENVO:01001071] + description: placeholder PV descr, DO NOT SORT + __________volcanic crater [ENVO:00000246]: + text: __________volcanic crater [ENVO:00000246] + description: placeholder PV descr, DO NOT SORT + __________caldera [ENVO:00000096]: + text: __________caldera [ENVO:00000096] + description: placeholder PV descr, DO NOT SORT + ________channel of a watercourse [ENVO:00000395]: + text: ________channel of a watercourse [ENVO:00000395] + description: placeholder PV descr, DO NOT SORT + __________strait [ENVO:00000394]: + text: __________strait [ENVO:00000394] + description: placeholder PV descr, DO NOT SORT + __________dry stream [ENVO:00000278]: + text: __________dry stream [ENVO:00000278] + description: placeholder PV descr, DO NOT SORT + ____________dry river [ENVO:01000995]: + text: ____________dry river [ENVO:01000995] + description: placeholder PV descr, DO NOT SORT + __________artificial channel [ENVO:00000121]: + text: __________artificial channel [ENVO:00000121] + description: placeholder PV descr, DO NOT SORT + ____________plumbing drain [ENVO:01000924]: + text: ____________plumbing drain [ENVO:01000924] + description: placeholder PV descr, DO NOT SORT + ____________ditch [ENVO:00000037]: + text: ____________ditch [ENVO:00000037] + description: placeholder PV descr, DO NOT SORT + ________sinkhole [ENVO:00000195]: + text: ________sinkhole [ENVO:00000195] + description: placeholder PV descr, DO NOT SORT + ______elevated landform [ENVO:00000176]: + text: ______elevated landform [ENVO:00000176] + description: placeholder PV descr, DO NOT SORT + ________flattened elevation [ENVO:01001491]: + text: ________flattened elevation [ENVO:01001491] + description: placeholder PV descr, DO NOT SORT + __________butte [ENVO:00000287]: + text: __________butte [ENVO:00000287] + description: placeholder PV descr, DO NOT SORT + __________plateau [ENVO:00000182]: + text: __________plateau [ENVO:00000182] + description: placeholder PV descr, DO NOT SORT + __________mesa [ENVO:00000179]: + text: __________mesa [ENVO:00000179] + description: placeholder PV descr, DO NOT SORT + ________pinnacle [ENVO:00000481]: + text: ________pinnacle [ENVO:00000481] + description: placeholder PV descr, DO NOT SORT + ________mount [ENVO:00000477]: + text: ________mount [ENVO:00000477] + description: placeholder PV descr, DO NOT SORT + __________hill [ENVO:00000083]: + text: __________hill [ENVO:00000083] + description: placeholder PV descr, DO NOT SORT + ____________dune [ENVO:00000170]: + text: ____________dune [ENVO:00000170] + description: placeholder PV descr, DO NOT SORT + __________mountain [ENVO:00000081]: + text: __________mountain [ENVO:00000081] + description: placeholder PV descr, DO NOT SORT + ________ridge [ENVO:00000283]: + text: ________ridge [ENVO:00000283] + description: placeholder PV descr, DO NOT SORT + ____part of a landmass [ENVO:01001781]: + text: ____part of a landmass [ENVO:01001781] + description: placeholder PV descr, DO NOT SORT + ______peninsula [ENVO:00000305]: + text: ______peninsula [ENVO:00000305] + description: placeholder PV descr, DO NOT SORT + ____geological fracture [ENVO:01000667]: + text: ____geological fracture [ENVO:01000667] + description: placeholder PV descr, DO NOT SORT + ______vein [ENVO:01000670]: + text: ______vein [ENVO:01000670] + description: placeholder PV descr, DO NOT SORT + ______geological fault [ENVO:01000668]: + text: ______geological fault [ENVO:01000668] + description: placeholder PV descr, DO NOT SORT + ________active geological fault [ENVO:01000669]: + text: ________active geological fault [ENVO:01000669] + description: placeholder PV descr, DO NOT SORT + ______volcano [ENVO:00000247]: + text: ______volcano [ENVO:00000247] + description: placeholder PV descr, DO NOT SORT + __field [ENVO:01000352]: + text: __field [ENVO:01000352] + description: placeholder PV descr, DO NOT SORT + ____lava field [ENVO:01000437]: + text: ____lava field [ENVO:01000437] + description: placeholder PV descr, DO NOT SORT + ____gravel field [ENVO:00000548]: + text: ____gravel field [ENVO:00000548] + description: placeholder PV descr, DO NOT SORT + ____woodland clearing [ENVO:00000444]: + text: ____woodland clearing [ENVO:00000444] + description: placeholder PV descr, DO NOT SORT + ____agricultural field [ENVO:00000114]: + text: ____agricultural field [ENVO:00000114] + description: placeholder PV descr, DO NOT SORT + ____snow field [ENVO:00000146]: + text: ____snow field [ENVO:00000146] + description: placeholder PV descr, DO NOT SORT + __geographic feature [ENVO:00000000]: + text: __geographic feature [ENVO:00000000] + description: placeholder PV descr, DO NOT SORT + ____hydrographic feature [ENVO:00000012]: + text: ____hydrographic feature [ENVO:00000012] + description: placeholder PV descr, DO NOT SORT + ______reef [ENVO:01001899]: + text: ______reef [ENVO:01001899] + description: placeholder PV descr, DO NOT SORT + ______inlet [ENVO:00000475]: + text: ______inlet [ENVO:00000475] + description: placeholder PV descr, DO NOT SORT + ______bar [ENVO:00000167]: + text: ______bar [ENVO:00000167] + description: placeholder PV descr, DO NOT SORT + ________tombolo [ENVO:00000420]: + text: ________tombolo [ENVO:00000420] + description: placeholder PV descr, DO NOT SORT + ____anthropogenic geographic feature [ENVO:00000002]: + text: ____anthropogenic geographic feature [ENVO:00000002] + description: placeholder PV descr, DO NOT SORT + ______yard [ENVO:03600053]: + text: ______yard [ENVO:03600053] + description: placeholder PV descr, DO NOT SORT + ________residential backyard [ENVO:03600033]: + text: ________residential backyard [ENVO:03600033] + description: placeholder PV descr, DO NOT SORT + ______market [ENVO:01000987]: + text: ______market [ENVO:01000987] + description: placeholder PV descr, DO NOT SORT + ______park [ENVO:00000562]: + text: ______park [ENVO:00000562] + description: placeholder PV descr, DO NOT SORT + ______well [ENVO:00000026]: + text: ______well [ENVO:00000026] + description: placeholder PV descr, DO NOT SORT + ______garden [ENVO:00000011]: + text: ______garden [ENVO:00000011] + description: placeholder PV descr, DO NOT SORT + OxyStatSampEnum: + name: OxyStatSampEnum + description: placeholder enum descr, DO NOT SORT + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + aerobic: + text: aerobic + description: placeholder PV descr, DO NOT SORT + anaerobic: + text: anaerobic + description: placeholder PV descr, DO NOT SORT + other: + text: other + description: placeholder PV descr, DO NOT SORT + window_mat_enum: + name: window_mat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + clad: + text: clad + fiberglass: + text: fiberglass + metal: + text: metal + vinyl: + text: vinyl + wood: + text: wood + substructure_type_enum: + name: substructure_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + crawlspace: + text: crawlspace + slab on grade: + text: slab on grade + basement: + text: basement + filter_type_enum: + name: filter_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + particulate air filter: + text: particulate air filter + chemical air filter: + text: chemical air filter + low-MERV pleated media: + text: low-MERV pleated media + HEPA: + text: HEPA + electrostatic: + text: electrostatic + gas-phase or ultraviolet air treatments: + text: gas-phase or ultraviolet air treatments + weekday_enum: + name: weekday_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Monday: + text: Monday + Tuesday: + text: Tuesday + Wednesday: + text: Wednesday + Thursday: + text: Thursday + Friday: + text: Friday + Saturday: + text: Saturday + Sunday: + text: Sunday + train_line_enum: + name: train_line_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + red: + text: red + green: + text: green + orange: + text: orange + door_direct_enum: + name: door_direct_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + inward: + text: inward + outward: + text: outward + sideways: + text: sideways + furniture_enum: + name: furniture_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + cabinet: + text: cabinet + chair: + text: chair + desks: + text: desks + occup_document_enum: + name: occup_document_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + automated count: + text: automated count + estimate: + text: estimate + manual count: + text: manual count + videos: + text: videos + window_horiz_pos_enum: + name: window_horiz_pos_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + left: + text: left + middle: + text: middle + right: + text: right + window_cover_enum: + name: window_cover_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + blinds: + text: blinds + curtains: + text: curtains + none: + text: none + shading_device_cond_enum: + name: shading_device_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + damaged: + text: damaged + needs repair: + text: needs repair + new: + text: new + rupture: + text: rupture + visible wear: + text: visible wear + int_wall_cond_enum: + name: int_wall_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + new: + text: new + visible wear: + text: visible wear + needs repair: + text: needs repair + damaged: + text: damaged + rupture: + text: rupture + light_type_enum: + name: light_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + natural light: + text: natural light + electric light: + text: electric light + desk lamp: + text: desk lamp + flourescent lights: + text: flourescent lights + none: + text: none + ext_window_orient_enum: + name: ext_window_orient_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + northeast: + text: northeast + southeast: + text: southeast + southwest: + text: southwest + northwest: + text: northwest + arch_struc_enum: + name: arch_struc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + building: + text: building + shed: + text: shed + home: + text: home + floor_struc_enum: + name: floor_struc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + balcony: + text: balcony + floating floor: + text: floating floor + glass floor: + text: glass floor + raised floor: + text: raised floor + sprung floor: + text: sprung floor + wood-framed: + text: wood-framed + concrete: + text: concrete + handidness_enum: + name: handidness_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + ambidexterity: + text: ambidexterity + left handedness: + text: left handedness + mixed-handedness: + text: mixed-handedness + right handedness: + text: right handedness + wall_surf_treatment_enum: + name: wall_surf_treatment_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + painted: + text: painted + wall paper: + text: wall paper + no treatment: + text: no treatment + paneling: + text: paneling + stucco: + text: stucco + fabric: + text: fabric + specific_enum: + name: specific_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + operation: + text: operation + as built: + text: as built + construction: + text: construction + bid: + text: bid + design: + text: design + photos: + text: photos + window_loc_enum: + name: window_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + building_setting_enum: + name: building_setting_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + urban: + text: urban + suburban: + text: suburban + exurban: + text: exurban + rural: + text: rural + samp_floor_enum: + name: samp_floor_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 1st floor: + text: 1st floor + 2nd floor: + text: 2nd floor + basement: + text: basement + lobby: + text: lobby + vis_media_enum: + name: vis_media_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + photos: + text: photos + videos: + text: videos + commonly of the building: + text: commonly of the building + site context (adjacent buildings, vegetation, terrain, streets): + text: site context (adjacent buildings, vegetation, terrain, streets) + interiors: + text: interiors + equipment: + text: equipment + 3D scans: + text: 3D scans + indoor_space_enum: + name: indoor_space_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + bedroom: + text: bedroom + office: + text: office + bathroom: + text: bathroom + foyer: + text: foyer + kitchen: + text: kitchen + locker room: + text: locker room + hallway: + text: hallway + elevator: + text: elevator + ceil_texture_enum: + name: ceil_texture_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + crows feet: + text: crows feet + crows-foot stomp: + text: crows-foot stomp + double skip: + text: double skip + hawk and trowel: + text: hawk and trowel + knockdown: + text: knockdown + popcorn: + text: popcorn + orange peel: + text: orange peel + rosebud stomp: + text: rosebud stomp + Santa-Fe texture: + text: Santa-Fe texture + skip trowel: + text: skip trowel + smooth: + text: smooth + stomp knockdown: + text: stomp knockdown + swirl: + text: swirl + door_move_enum: + name: door_move_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + collapsible: + text: collapsible + folding: + text: folding + revolving: + text: revolving + rolling shutter: + text: rolling shutter + sliding: + text: sliding + swinging: + text: swinging + door_comp_type_enum: + name: door_comp_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + metal covered: + text: metal covered + revolving: + text: revolving + sliding: + text: sliding + telescopic: + text: telescopic + wall_texture_enum: + name: wall_texture_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + crows feet: + text: crows feet + crows-foot stomp: + text: crows-foot stomp + '': + text: '' + double skip: + text: double skip + hawk and trowel: + text: hawk and trowel + knockdown: + text: knockdown + popcorn: + text: popcorn + orange peel: + text: orange peel + rosebud stomp: + text: rosebud stomp + Santa-Fe texture: + text: Santa-Fe texture + skip trowel: + text: skip trowel + smooth: + text: smooth + stomp knockdown: + text: stomp knockdown + swirl: + text: swirl + wall_loc_enum: + name: wall_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + floor_water_mold_enum: + name: floor_water_mold_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + mold odor: + text: mold odor + wet floor: + text: wet floor + water stains: + text: water stains + wall discoloration: + text: wall discoloration + floor discoloration: + text: floor discoloration + ceiling discoloration: + text: ceiling discoloration + peeling paint or wallpaper: + text: peeling paint or wallpaper + bulging walls: + text: bulging walls + condensation: + text: condensation + door_type_enum: + name: door_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + composite: + text: composite + metal: + text: metal + wooden: + text: wooden + window_cond_enum: + name: window_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + damaged: + text: damaged + needs repair: + text: needs repair + new: + text: new + rupture: + text: rupture + visible wear: + text: visible wear + water_feat_type_enum: + name: water_feat_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + fountain: + text: fountain + pool: + text: pool + standing feature: + text: standing feature + stream: + text: stream + waterfall: + text: waterfall + floor_cond_enum: + name: floor_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + new: + text: new + visible wear: + text: visible wear + needs repair: + text: needs repair + damaged: + text: damaged + rupture: + text: rupture + indoor_surf_enum: + name: indoor_surf_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + cabinet: + text: cabinet + ceiling: + text: ceiling + counter top: + text: counter top + door: + text: door + shelving: + text: shelving + vent cover: + text: vent cover + window: + text: window + wall: + text: wall + ext_wall_orient_enum: + name: ext_wall_orient_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + northeast: + text: northeast + southeast: + text: southeast + southwest: + text: southwest + northwest: + text: northwest + build_occup_type_enum: + name: build_occup_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + office: + text: office + market: + text: market + restaurant: + text: restaurant + residence: + text: residence + school: + text: school + residential: + text: residential + commercial: + text: commercial + low rise: + text: low rise + high rise: + text: high rise + wood framed: + text: wood framed + health care: + text: health care + airport: + text: airport + sports complex: + text: sports complex + door_mat_enum: + name: door_mat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + aluminum: + text: aluminum + cellular PVC: + text: cellular PVC + engineered plastic: + text: engineered plastic + fiberboard: + text: fiberboard + fiberglass: + text: fiberglass + metal: + text: metal + thermoplastic alloy: + text: thermoplastic alloy + vinyl: + text: vinyl + wood: + text: wood + wood/plastic composite: + text: wood/plastic composite + door_loc_enum: + name: door_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + mech_struc_enum: + name: mech_struc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + subway: + text: subway + coach: + text: coach + carriage: + text: carriage + elevator: + text: elevator + escalator: + text: escalator + boat: + text: boat + train: + text: train + car: + text: car + bus: + text: bus + surf_air_cont_enum: + name: surf_air_cont_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + dust: + text: dust + organic matter: + text: organic matter + particulate matter: + text: particulate matter + volatile organic compounds: + text: volatile organic compounds + biological contaminants: + text: biological contaminants + radon: + text: radon + nutrients: + text: nutrients + biocides: + text: biocides + shading_device_type_enum: + name: shading_device_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + bahama shutters: + text: bahama shutters + exterior roll blind: + text: exterior roll blind + gambrel awning: + text: gambrel awning + hood awning: + text: hood awning + porchroller awning: + text: porchroller awning + sarasota shutters: + text: sarasota shutters + slatted aluminum: + text: slatted aluminum + solid aluminum awning: + text: solid aluminum awning + sun screen: + text: sun screen + tree: + text: tree + trellis: + text: trellis + venetian awning: + text: venetian awning + room_loc_enum: + name: room_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + corner room: + text: corner room + interior room: + text: interior room + exterior wall: + text: exterior wall + room_condt_enum: + name: room_condt_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + new: + text: new + visible wear: + text: visible wear + needs repair: + text: needs repair + damaged: + text: damaged + rupture: + text: rupture + visible signs of mold/mildew: + text: visible signs of mold/mildew + surf_material_enum: + name: surf_material_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + adobe: + text: adobe + carpet: + text: carpet + cinder blocks: + text: cinder blocks + concrete: + text: concrete + hay bales: + text: hay bales + glass: + text: glass + metal: + text: metal + paint: + text: paint + plastic: + text: plastic + stainless steel: + text: stainless steel + stone: + text: stone + stucco: + text: stucco + tile: + text: tile + vinyl: + text: vinyl + wood: + text: wood + ceil_finish_mat_enum: + name: ceil_finish_mat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + drywall: + text: drywall + mineral fibre: + text: mineral fibre + tiles: + text: tiles + PVC: + text: PVC + plasterboard: + text: plasterboard + metal: + text: metal + fiberglass: + text: fiberglass + stucco: + text: stucco + mineral wool/calcium silicate: + text: mineral wool/calcium silicate + wood: + text: wood + door_type_wood_enum: + name: door_type_wood_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + bettened and ledged: + text: bettened and ledged + battened: + text: battened + ledged and braced: + text: ledged and braced + ledged and framed: + text: ledged and framed + ledged, braced and frame: + text: ledged, braced and frame + framed and paneled: + text: framed and paneled + glashed or sash: + text: glashed or sash + flush: + text: flush + louvered: + text: louvered + wire gauged: + text: wire gauged + heat_deliv_loc_enum: + name: heat_deliv_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north: + text: north + south: + text: south + east: + text: east + west: + text: west + train_stat_loc_enum: + name: train_stat_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + south station above ground: + text: south station above ground + south station underground: + text: south station underground + south station amtrak: + text: south station amtrak + forest hills: + text: forest hills + riverside: + text: riverside + floor_finish_mat_enum: + name: floor_finish_mat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + tile: + text: tile + wood strip or parquet: + text: wood strip or parquet + carpet: + text: carpet + rug: + text: rug + laminate wood: + text: laminate wood + lineoleum: + text: lineoleum + vinyl composition tile: + text: vinyl composition tile + sheet vinyl: + text: sheet vinyl + stone: + text: stone + bamboo: + text: bamboo + cork: + text: cork + terrazo: + text: terrazo + concrete: + text: concrete + none: + text: none + sealed: + text: sealed + clear finish: + text: clear finish + paint: + text: paint + none or unfinished: + text: none or unfinished + window_type_enum: + name: window_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + single-hung sash window: + text: single-hung sash window + horizontal sash window: + text: horizontal sash window + fixed window: + text: fixed window + drawings_enum: + name: drawings_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + operation: + text: operation + as built: + text: as built + construction: + text: construction + bid: + text: bid + design: + text: design + building navigation map: + text: building navigation map + diagram: + text: diagram + sketch: + text: sketch + wall_const_type_enum: + name: wall_const_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + frame construction: + text: frame construction + joisted masonry: + text: joisted masonry + light noncombustible: + text: light noncombustible + masonry noncombustible: + text: masonry noncombustible + modified fire resistive: + text: modified fire resistive + fire resistive: + text: fire resistive + wall_finish_mat_enum: + name: wall_finish_mat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + plaster: + text: plaster + gypsum plaster: + text: gypsum plaster + veneer plaster: + text: veneer plaster + gypsum board: + text: gypsum board + tile: + text: tile + terrazzo: + text: terrazzo + stone facing: + text: stone facing + acoustical treatment: + text: acoustical treatment + wood: + text: wood + metal: + text: metal + masonry: + text: masonry + heat_cool_type_enum: + name: heat_cool_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + radiant system: + text: radiant system + heat pump: + text: heat pump + forced air system: + text: forced air system + steam forced heat: + text: steam forced heat + wood stove: + text: wood stove + window_vert_pos_enum: + name: window_vert_pos_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + bottom: + text: bottom + middle: + text: middle + top: + text: top + low: + text: low + high: + text: high + ceil_cond_enum: + name: ceil_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + new: + text: new + visible wear: + text: visible wear + needs repair: + text: needs repair + damaged: + text: damaged + rupture: + text: rupture + door_cond_enum: + name: door_cond_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + damaged: + text: damaged + needs repair: + text: needs repair + new: + text: new + rupture: + text: rupture + visible wear: + text: visible wear + rel_samp_loc_enum: + name: rel_samp_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + edge of car: + text: edge of car + center of car: + text: center of car + under a seat: + text: under a seat + room_connected_enum: + name: room_connected_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + attic: + text: attic + bathroom: + text: bathroom + closet: + text: closet + conference room: + text: conference room + elevator: + text: elevator + examining room: + text: examining room + hallway: + text: hallway + kitchen: + text: kitchen + mail room: + text: mail room + office: + text: office + stairwell: + text: stairwell + train_stop_loc_enum: + name: train_stop_loc_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + end: + text: end + mid: + text: mid + downtown: + text: downtown + quad_pos_enum: + name: quad_pos_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + North side: + text: North side + West side: + text: West side + South side: + text: South side + East side: + text: East side + ceil_type_enum: + name: ceil_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + cathedral: + text: cathedral + dropped: + text: dropped + concave: + text: concave + barrel-shaped: + text: barrel-shaped + coffered: + text: coffered + cove: + text: cove + stretched: + text: stretched + build_docs_enum: + name: build_docs_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + building information model: + text: building information model + commissioning report: + text: commissioning report + complaint logs: + text: complaint logs + contract administration: + text: contract administration + cost estimate: + text: cost estimate + janitorial schedules or logs: + text: janitorial schedules or logs + maintenance plans: + text: maintenance plans + schedule: + text: schedule + sections: + text: sections + shop drawings: + text: shop drawings + submittals: + text: submittals + ventilation system: + text: ventilation system + windows: + text: windows + room_type_enum: + name: room_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + attic: + text: attic + bathroom: + text: bathroom + closet: + text: closet + conference room: + text: conference room + elevator: + text: elevator + examining room: + text: examining room + hallway: + text: hallway + kitchen: + text: kitchen + mail room: + text: mail room + private office: + text: private office + open office: + text: open office + stairwell: + text: stairwell + ',restroom': + text: ',restroom' + lobby: + text: lobby + vestibule: + text: vestibule + mechanical or electrical room: + text: mechanical or electrical room + data center: + text: data center + laboratory_wet: + text: laboratory_wet + laboratory_dry: + text: laboratory_dry + gymnasium: + text: gymnasium + natatorium: + text: natatorium + auditorium: + text: auditorium + lockers: + text: lockers + cafe: + text: cafe + warehouse: + text: warehouse + season_use_enum: + name: season_use_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Spring: + text: Spring + Summer: + text: Summer + Fall: + text: Fall + Winter: + text: Winter + door_type_metal_enum: + name: door_type_metal_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + collapsible: + text: collapsible + corrugated steel: + text: corrugated steel + hollow: + text: hollow + rolling shutters: + text: rolling shutters + steel plate: + text: steel plate + room_samp_pos_enum: + name: room_samp_pos_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + north corner: + text: north corner + south corner: + text: south corner + west corner: + text: west corner + east corner: + text: east corner + northeast corner: + text: northeast corner + northwest corner: + text: northwest corner + southeast corner: + text: southeast corner + southwest corner: + text: southwest corner + center: + text: center + samp_weather_enum: + name: samp_weather_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + clear sky: + text: clear sky + cloudy: + text: cloudy + foggy: + text: foggy + hail: + text: hail + rain: + text: rain + snow: + text: snow + sleet: + text: sleet + sunny: + text: sunny + windy: + text: windy + gender_restroom_enum: + name: gender_restroom_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + all gender: + text: all gender + female: + text: female + gender neurtral: + text: gender neurtral + male: + text: male + male and female: + text: male and female + unisex: + text: unisex + hc_produced_enum: + name: hc_produced_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Oil: + text: Oil + Gas-Condensate: + text: Gas-Condensate + Gas: + text: Gas + Bitumen: + text: Bitumen + Coalbed Methane: + text: Coalbed Methane + other: + text: other + hcr_enum: + name: hcr_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Oil Reservoir: + text: Oil Reservoir + Gas Reservoir: + text: Gas Reservoir + Oil Sand: + text: Oil Sand + Coalbed: + text: Coalbed + Shale: + text: Shale + Tight Oil Reservoir: + text: Tight Oil Reservoir + Tight Gas Reservoir: + text: Tight Gas Reservoir + other: + text: other + lithology_enum: + name: lithology_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Basement: + text: Basement + Chalk: + text: Chalk + Chert: + text: Chert + Coal: + text: Coal + Conglomerate: + text: Conglomerate + Diatomite: + text: Diatomite + Dolomite: + text: Dolomite + Limestone: + text: Limestone + Sandstone: + text: Sandstone + Shale: + text: Shale + Siltstone: + text: Siltstone + Volcanic: + text: Volcanic + other: + text: other + samp_collect_point_enum: + name: samp_collect_point_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + well: + text: well + test well: + text: test well + drilling rig: + text: drilling rig + wellhead: + text: wellhead + separator: + text: separator + storage tank: + text: storage tank + other: + text: other + oxy_stat_samp_enum: + name: oxy_stat_samp_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + aerobic: + text: aerobic + anaerobic: + text: anaerobic + other: + text: other + depos_env_enum: + name: depos_env_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Continental - Alluvial: + text: Continental - Alluvial + Continental - Aeolian: + text: Continental - Aeolian + Continental - Fluvial: + text: Continental - Fluvial + Continental - Lacustrine: + text: Continental - Lacustrine + Transitional - Deltaic: + text: Transitional - Deltaic + Transitional - Tidal: + text: Transitional - Tidal + Transitional - Lagoonal: + text: Transitional - Lagoonal + Transitional - Beach: + text: Transitional - Beach + Transitional - Lake: + text: Transitional - Lake + Marine - Shallow: + text: Marine - Shallow + Marine - Deep: + text: Marine - Deep + Marine - Reef: + text: Marine - Reef + Other - Evaporite: + text: Other - Evaporite + Other - Glacial: + text: Other - Glacial + Other - Volcanic: + text: Other - Volcanic + other: + text: other + hcr_geol_age_enum: + name: hcr_geol_age_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Archean: + text: Archean + Cambrian: + text: Cambrian + Carboniferous: + text: Carboniferous + Cenozoic: + text: Cenozoic + Cretaceous: + text: Cretaceous + Devonian: + text: Devonian + Jurassic: + text: Jurassic + Mesozoic: + text: Mesozoic + Neogene: + text: Neogene + Ordovician: + text: Ordovician + Paleogene: + text: Paleogene + Paleozoic: + text: Paleozoic + Permian: + text: Permian + Precambrian: + text: Precambrian + Proterozoic: + text: Proterozoic + Silurian: + text: Silurian + Triassic: + text: Triassic + other: + text: other + samp_subtype_enum: + name: samp_subtype_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + oil phase: + text: oil phase + water phase: + text: water phase + biofilm: + text: biofilm + not applicable: + text: not applicable + other: + text: other + sr_lithology_enum: + name: sr_lithology_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Clastic: + text: Clastic + Carbonate: + text: Carbonate + Coal: + text: Coal + Biosilicieous: + text: Biosilicieous + other: + text: other + sr_kerog_type_enum: + name: sr_kerog_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Type I: + text: Type I + Type II: + text: Type II + Type III: + text: Type III + Type IV: + text: Type IV + other: + text: other + sr_dep_env_enum: + name: sr_dep_env_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Lacustine: + text: Lacustine + Fluvioldeltaic: + text: Fluvioldeltaic + Fluviomarine: + text: Fluviomarine + Marine: + text: Marine + other: + text: other + sr_geol_age_enum: + name: sr_geol_age_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Archean: + text: Archean + Cambrian: + text: Cambrian + Carboniferous: + text: Carboniferous + Cenozoic: + text: Cenozoic + Cretaceous: + text: Cretaceous + Devonian: + text: Devonian + Jurassic: + text: Jurassic + Mesozoic: + text: Mesozoic + Neogene: + text: Neogene + Ordovician: + text: Ordovician + Paleogene: + text: Paleogene + Paleozoic: + text: Paleozoic + Permian: + text: Permian + Precambrian: + text: Precambrian + Proterozoic: + text: Proterozoic + Silurian: + text: Silurian + Triassic: + text: Triassic + other: + text: other + biotic_relationship_enum: + name: biotic_relationship_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + free living: + text: free living + parasite: + text: parasite + commensal: + text: commensal + symbiont: + text: symbiont + fao_class_enum: + name: fao_class_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Acrisols: + text: Acrisols + Andosols: + text: Andosols + Arenosols: + text: Arenosols + Cambisols: + text: Cambisols + Chernozems: + text: Chernozems + Ferralsols: + text: Ferralsols + Fluvisols: + text: Fluvisols + Gleysols: + text: Gleysols + Greyzems: + text: Greyzems + Gypsisols: + text: Gypsisols + Histosols: + text: Histosols + Kastanozems: + text: Kastanozems + Lithosols: + text: Lithosols + Luvisols: + text: Luvisols + Nitosols: + text: Nitosols + Phaeozems: + text: Phaeozems + Planosols: + text: Planosols + Podzols: + text: Podzols + Podzoluvisols: + text: Podzoluvisols + Rankers: + text: Rankers + Regosols: + text: Regosols + Rendzinas: + text: Rendzinas + Solonchaks: + text: Solonchaks + Solonetz: + text: Solonetz + Vertisols: + text: Vertisols + Yermosols: + text: Yermosols + cur_land_use_enum: + name: cur_land_use_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + badlands: + text: badlands + cities: + text: cities + conifers: + text: conifers + annotations: + originally: + tag: originally + value: conifers (e.g. pine,spruce,fir,cypress) + examples: + - value: cypress + - value: fir + - value: pine + - value: spruce + crop trees: + text: crop trees + annotations: + originally: + tag: originally + value: crop trees (nuts,fruit,christmas trees,nursery trees) + examples: + - value: christmas trees + - value: fruit + - value: nursery trees + - value: nuts + farmstead: + text: farmstead + gravel: + text: gravel + hardwoods: + text: hardwoods + annotations: + originally: + tag: originally + value: hardwoods (e.g. oak,hickory,elm,aspen) + examples: + - value: aspen + - value: elm + - value: hickory + - value: oak + hayland: + text: hayland + horticultural plants: + text: horticultural plants + annotations: + originally: + tag: originally + value: horticultural plants (e.g. tulips) + examples: + - value: tulips + industrial areas: + text: industrial areas + intermixed hardwood and conifers: + text: intermixed hardwood and conifers + marshlands: + text: marshlands + annotations: + originally: + tag: originally + value: marshlands (grass,sedges,rushes) + examples: + - value: grass + - value: rushes + - value: sedgees + meadows: + text: meadows + annotations: + originally: + tag: originally + value: meadows (grasses,alfalfa,fescue,bromegrass,timothy) + examples: + - value: alfalfa + - value: bromegrass + - value: fescue + - value: grasses + - value: timothy + mines/quarries: + text: mines/quarries + mudflats: + text: mudflats + oil waste areas: + text: oil waste areas + pastureland: + text: pastureland + annotations: + originally: + tag: originally + value: pastureland (grasslands used for livestock grazing) + comments: + - grasslands used for livestock grazing + permanent snow or ice: + text: permanent snow or ice + rainforest: + text: rainforest + annotations: + originally: + tag: originally + value: rainforest (evergreen forest receiving greater than 406 cm annual rainfall) + comments: + - evergreen forest receiving greater than 406 cm annual rainfall + rangeland: + text: rangeland + roads/railroads: + text: roads/railroads + rock: + text: rock + row crops: + text: row crops + saline seeps: + text: saline seeps + salt flats: + text: salt flats + sand: + text: sand + shrub crops: + text: shrub crops + annotations: + originally: + tag: originally + value: shrub crops (blueberries,nursery ornamentals,filberts) + examples: + - value: blueberries + - value: filberts + - value: nursery ornamentals + shrub land: + text: shrub land + annotations: + originally: + tag: originally + value: shrub land (e.g. mesquite,sage-brush,creosote bush,shrub oak,eucalyptus) + examples: + - value: creosote bush + - value: eucalyptus + - value: mesquite + - value: sage-brush + - value: shrub oak + small grains: + text: small grains + successional shrub land: + text: successional shrub land + annotations: + originally: + tag: originally + value: successional shrub land (tree saplings,hazels,sumacs,chokecherry,shrub dogwoods,blackberries) + examples: + - value: blackberries + - value: chokecherry + - value: hazels + - value: shrub dogwoods + - value: sumacs + - value: tree saplings + swamp: + text: swamp + annotations: + originally: + tag: originally + value: swamp (permanent or semi-permanent water body dominated by woody plants) + comments: + - permanent or semi-permanent water body dominated by woody plants + tropical: + text: tropical + annotations: + originally: + tag: originally + value: tropical (e.g. mangrove,palms) + examples: + - value: mangrove + - value: palms + tundra: + text: tundra + annotations: + originally: + tag: originally + value: tundra (mosses,lichens) + examples: + - value: lichens + - value: mosses + vegetable crops: + text: vegetable crops + vine crops: + text: vine crops + annotations: + originally: + tag: originally + value: vine crops (grapes) + examples: + - value: grapes + soil_horizon_enum: + name: soil_horizon_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + O horizon: + text: O horizon + A horizon: + text: A horizon + E horizon: + text: E horizon + B horizon: + text: B horizon + C horizon: + text: C horizon + R layer: + text: R layer + Permafrost: + text: Permafrost + M horizon: + text: M horizon + profile_position_enum: + name: profile_position_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + summit: + text: summit + shoulder: + text: shoulder + backslope: + text: backslope + footslope: + text: footslope + toeslope: + text: toeslope + tillage_enum: + name: tillage_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + drill: + text: drill + cutting disc: + text: cutting disc + ridge till: + text: ridge till + strip tillage: + text: strip tillage + zonal tillage: + text: zonal tillage + chisel: + text: chisel + tined: + text: tined + mouldboard: + text: mouldboard + disc plough: + text: disc plough + drainage_class_enum: + name: drainage_class_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + very poorly: + text: very poorly + poorly: + text: poorly + somewhat poorly: + text: somewhat poorly + moderately well: + text: moderately well + well: + text: well + excessively drained: + text: excessively drained + samp_capt_status_enum: + name: samp_capt_status_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + active surveillance in response to an outbreak: + text: active surveillance in response to an outbreak + active surveillance not initiated by an outbreak: + text: active surveillance not initiated by an outbreak + farm sample: + text: farm sample + market sample: + text: market sample + other: + text: other + samp_dis_stage_enum: + name: samp_dis_stage_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + dissemination: + text: dissemination + growth and reproduction: + text: growth and reproduction + infection: + text: infection + inoculation: + text: inoculation + penetration: + text: penetration + other: + text: other + biol_stat_enum: + name: biol_stat_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + wild: + text: wild + natural: + text: natural + semi-natural: + text: semi-natural + inbred line: + text: inbred line + breeder's line: + text: breeder's line + hybrid: + text: hybrid + clonal selection: + text: clonal selection + mutant: + text: mutant + growth_habit_enum: + name: growth_habit_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + erect: + text: erect + semi-erect: + text: semi-erect + spreading: + text: spreading + prostrate: + text: prostrate + plant_sex_enum: + name: plant_sex_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + Androdioecious: + text: Androdioecious + Androecious: + text: Androecious + Androgynous: + text: Androgynous + Androgynomonoecious: + text: Androgynomonoecious + Andromonoecious: + text: Andromonoecious + Bisexual: + text: Bisexual + Dichogamous: + text: Dichogamous + Diclinous: + text: Diclinous + Dioecious: + text: Dioecious + Gynodioecious: + text: Gynodioecious + Gynoecious: + text: Gynoecious + Gynomonoecious: + text: Gynomonoecious + Hermaphroditic: + text: Hermaphroditic + Imperfect: + text: Imperfect + Monoclinous: + text: Monoclinous + Monoecious: + text: Monoecious + Perfect: + text: Perfect + Polygamodioecious: + text: Polygamodioecious + Polygamomonoecious: + text: Polygamomonoecious + Polygamous: + text: Polygamous + Protandrous: + text: Protandrous + Protogynous: + text: Protogynous + Subandroecious: + text: Subandroecious + Subdioecious: + text: Subdioecious + Subgynoecious: + text: Subgynoecious + Synoecious: + text: Synoecious + Trimonoecious: + text: Trimonoecious + Trioecious: + text: Trioecious + Unisexual: + text: Unisexual + sediment_type_enum: + name: sediment_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + biogenous: + text: biogenous + cosmogenous: + text: cosmogenous + hydrogenous: + text: hydrogenous + lithogenous: + text: lithogenous + tidal_stage_enum: + name: tidal_stage_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + low tide: + text: low tide + ebb tide: + text: ebb tide + flood tide: + text: flood tide + high tide: + text: high tide + host_sex_enum: + name: host_sex_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + female: + text: female + hermaphrodite: + text: hermaphrodite + male: + text: male + neuter: + text: neuter + analysis_type_enum: + name: analysis_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + metabolomics: + text: metabolomics + metagenomics: + text: metagenomics + metaproteomics: + text: metaproteomics + metatranscriptomics: + text: metatranscriptomics + natural organic matter: + text: natural organic matter + dna_sample_format_enum: + name: dna_sample_format_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 10 mM Tris-HCl: + text: 10 mM Tris-HCl + DNAStable: + text: DNAStable + Ethanol: + text: Ethanol + Low EDTA TE: + text: Low EDTA TE + MDA reaction buffer: + text: MDA reaction buffer + PBS: + text: PBS + Pellet: + text: Pellet + RNAStable: + text: RNAStable + TE: + text: TE + Water: + text: Water + Gentegra-DNA: + text: Gentegra-DNA + Gentegra-RNA: + text: Gentegra-RNA + rna_sample_format_enum: + name: rna_sample_format_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + 10 mM Tris-HCl: + text: 10 mM Tris-HCl + DNAStable: + text: DNAStable + Ethanol: + text: Ethanol + Low EDTA TE: + text: Low EDTA TE + MDA reaction buffer: + text: MDA reaction buffer + PBS: + text: PBS + Pellet: + text: Pellet + RNAStable: + text: RNAStable + TE: + text: TE + Water: + text: Water + Gentegra-DNA: + text: Gentegra-DNA + Gentegra-RNA: + text: Gentegra-RNA + sample_type_enum: + name: sample_type_enum + from_schema: https://example.com/nmdc_submission_schema + permissible_values: + soil: + text: soil + water_extract_soil: + text: water_extract_soil +slots: + air_data: + name: air_data + description: aggregation slot relating air data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: AirInterface + inlined: true + inlined_as_list: true + biofilm_data: + name: biofilm_data + description: aggregation slot relating biofilm data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: BiofilmInterface + inlined: true + inlined_as_list: true + built_env_data: + name: built_env_data + description: aggregation slot relating built_env data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: BuiltEnvInterface + inlined: true + inlined_as_list: true + emsl_data: + name: emsl_data + description: aggregation slot relating emsl data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: EmslInterface + inlined: true + inlined_as_list: true + hcr_cores_data: + name: hcr_cores_data + description: aggregation slot relating hcr_cores data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: HcrCoresInterface + inlined: true + inlined_as_list: true + hcr_fluids_swabs_data: + name: hcr_fluids_swabs_data + description: aggregation slot relating hcr_fluids_swabs data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: HcrFluidsSwabsInterface + inlined: true + inlined_as_list: true + host_associated_data: + name: host_associated_data + description: aggregation slot relating host_associated data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: HostAssociatedInterface + inlined: true + inlined_as_list: true + jgi_mg_data: + name: jgi_mg_data + description: aggregation slot relating jgi_mg data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: JgiMgInterface + inlined: true + inlined_as_list: true + jgi_mt_data: + name: jgi_mt_data + description: aggregation slot relating jgi_mt data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: JgiMtInterface + inlined: true + inlined_as_list: true + misc_envs_data: + name: misc_envs_data + description: aggregation slot relating misc_envs data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: MiscEnvsInterface + inlined: true + inlined_as_list: true + plant_associated_data: + name: plant_associated_data + description: aggregation slot relating plant_associated data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: PlantAssociatedInterface + inlined: true + inlined_as_list: true + sediment_data: + name: sediment_data + description: aggregation slot relating sediment data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: SedimentInterface + inlined: true + inlined_as_list: true + soil_data: + name: soil_data + description: aggregation slot relating soil data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: SoilInterface + inlined: true + inlined_as_list: true + wastewater_sludge_data: + name: wastewater_sludge_data + description: aggregation slot relating wastewater_sludge data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: WastewaterSludgeInterface + inlined: true + inlined_as_list: true + water_data: + name: water_data + description: aggregation slot relating water data collections to a SampleData container + from_schema: https://example.com/nmdc_submission_schema + multivalued: true + range: WaterInterface + inlined: true + inlined_as_list: true + dh_section: + name: dh_section + description: dh_section grouping slot + from_schema: https://example.com/nmdc_submission_schema + emsl_section: + name: emsl_section + description: placeholder + title: EMSL + from_schema: https://example.com/nmdc_submission_schema + rank: 2 + is_a: dh_section + jgi_metagenomics_section: + name: jgi_metagenomics_section + description: placeholder + title: JGI-Metagenomics + from_schema: https://example.com/nmdc_submission_schema + rank: 3 + is_a: dh_section + jgi_metatranscriptomics_section: + name: jgi_metatranscriptomics_section + description: placeholder + title: JGI-Metatranscriptomics + from_schema: https://example.com/nmdc_submission_schema + rank: 4 + is_a: dh_section + mixs_core_section: + name: mixs_core_section + description: placeholder + title: MIxS Core + from_schema: https://example.com/nmdc_submission_schema + rank: 10 + is_a: dh_section + mixs_inspired_section: + name: mixs_inspired_section + description: placeholder + title: MIxS Inspired + from_schema: https://example.com/nmdc_submission_schema + rank: 7 + is_a: dh_section + mixs_investigation_section: + name: mixs_investigation_section + description: placeholder + from_schema: https://example.com/nmdc_submission_schema + rank: 8 + is_a: dh_section + mixs_modified_section: + name: mixs_modified_section + description: placeholder + title: MIxS (modified) + from_schema: https://example.com/nmdc_submission_schema + rank: 6 + is_a: dh_section + mixs_nassf_section: + name: mixs_nassf_section + description: placeholder + from_schema: https://example.com/nmdc_submission_schema + rank: 9 + is_a: dh_section + mixs_section: + name: mixs_section + description: placeholder + title: MIxS + from_schema: https://example.com/nmdc_submission_schema + rank: 5 + is_a: dh_section + sample_id_section: + name: sample_id_section + description: placeholder + title: Sample ID + from_schema: https://example.com/nmdc_submission_schema + rank: 1 + is_a: dh_section + abs_air_humidity: + name: abs_air_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per gram, kilogram per kilogram, kilogram, pound + occurrence: + tag: occurrence + value: '1' + description: Actual mass of water vapor - mh20 - present in the air water vapor mixture + title: absolute air humidity + examples: + - value: 9 gram per gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - absolute air humidity + is_a: core field + slot_uri: MIXS:0000122 + multivalued: false + range: string + add_recov_method: + name: add_recov_method + annotations: + expected_value: + tag: expected_value + value: enumeration;timestamp + occurrence: + tag: occurrence + value: '1' + description: Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If "other" is specified, please propose entry in "additional info" field + title: secondary and tertiary recovery methods and start date + examples: + - value: Polymer Addition;2018-06-21T14:30Z + from_schema: https://example.com/nmdc_submission_schema + aliases: + - secondary and tertiary recovery methods and start date + is_a: core field + slot_uri: MIXS:0001009 + multivalued: false + range: string + additional_info: + name: additional_info + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary + title: additional info + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - additional info + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000300 + multivalued: false + range: string + address: + name: address + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The street name and building number where the sampling occurred. + title: address + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - address + is_a: core field + string_serialization: '{integer}{text}' + slot_uri: MIXS:0000218 + multivalued: false + range: string + adj_room: + name: adj_room + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of rooms (room number, room name) immediately adjacent to the sampling room + title: adjacent rooms + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - adjacent rooms + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000219 + multivalued: false + range: string + aero_struc: + name: aero_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together + title: aerospace structure + examples: + - value: plane + from_schema: https://example.com/nmdc_submission_schema + aliases: + - aerospace structure + is_a: core field + string_serialization: '[plane|glider]' + slot_uri: MIXS:0000773 + multivalued: false + range: string + agrochem_addition: + name: agrochem_addition + annotations: + expected_value: + tag: expected_value + value: agrochemical name;agrochemical amount;timestamp + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Addition of fertilizers, pesticides, etc. - amount and time of applications + title: history/agrochemical additions + examples: + - value: roundup;5 milligram per liter;2018-06-21 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/agrochemical additions + is_a: core field + string_serialization: '{text};{float} {unit};{timestamp}' + slot_uri: MIXS:0000639 + multivalued: false + range: string + air_PM_concen: + name: air_PM_concen + annotations: + expected_value: + tag: expected_value + value: particulate matter name;measurement value + preferred_unit: + tag: preferred_unit + value: micrograms per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM + title: air particulate matter concentration + examples: + - value: PM2.5;10 microgram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - air particulate matter concentration + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000108 + multivalued: false + range: string + air_temp: + name: air_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature of the air at the time of sampling + title: air temperature + examples: + - value: 20 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - air temperature + is_a: core field + slot_uri: MIXS:0000124 + multivalued: false + range: string + air_temp_regm: + name: air_temp_regm + annotations: + expected_value: + tag: expected_value + value: temperature value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens + title: air temperature regimen + examples: + - value: 25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - air temperature regimen + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000551 + multivalued: false + range: string + al_sat: + name: al_sat + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Aluminum saturation (esp. For tropical soils) + title: extreme_unusual_properties/Al saturation + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - extreme_unusual_properties/Al saturation + is_a: core field + slot_uri: MIXS:0000607 + multivalued: false + range: string + al_sat_meth: + name: al_sat_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or URL + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining Al saturation + title: extreme_unusual_properties/Al saturation method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - extreme_unusual_properties/Al saturation method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000324 + multivalued: false + range: string + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - alkalinity + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + range: string + alkalinity_method: + name: alkalinity_method + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: '1' + description: Method used for alkalinity measurement + title: alkalinity method + examples: + - value: titration + from_schema: https://example.com/nmdc_submission_schema + aliases: + - alkalinity method + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000298 + multivalued: false + range: string + alkyl_diethers: + name: alkyl_diethers + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of alkyl diethers + title: alkyl diethers + examples: + - value: 0.005 mole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - alkyl diethers + is_a: core field + slot_uri: MIXS:0000490 + multivalued: false + range: string + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - altitude + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + range: string + aminopept_act: + name: aminopept_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of aminopeptidase activity + title: aminopeptidase activity + examples: + - value: 0.269 mole per liter per hour + from_schema: https://example.com/nmdc_submission_schema + aliases: + - aminopeptidase activity + is_a: core field + slot_uri: MIXS:0000172 + multivalued: false + range: string + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ammonium + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + range: string + ammonium_nitrogen: + name: ammonium_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium nitrogen in the sample + title: ammonium nitrogen + examples: + - value: 2.3 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - ammonium_nitrogen + - NH4-N + is_a: attribute + range: string + multivalued: false + amount_light: + name: amount_light + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: lux, lumens per square meter + occurrence: + tag: occurrence + value: '1' + description: The unit of illuminance and luminous emittance, measuring luminous flux per unit area + title: amount of light + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - amount of light + is_a: core field + slot_uri: MIXS:0000140 + multivalued: false + range: string + analysis_type: + name: analysis_type + description: Select all the data types associated or available for this biosample + title: analysis/data type + examples: + - value: metagenomics; metabolomics; proteomics + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:investigation_type + rank: 3 + multivalued: true + slot_group: Sample ID + range: analysis_type_enum + recommended: true + ances_data: + name: ances_data + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B) + title: ancestral data + examples: + - value: A/3*B + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ancestral data + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000247 + multivalued: false + range: string + annual_precpt: + name: annual_precpt + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter + occurrence: + tag: occurrence + value: '1' + description: The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps. + title: mean annual precipitation + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean annual precipitation + is_a: core field + slot_uri: MIXS:0000644 + multivalued: false + range: string + annual_temp: + name: annual_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Mean annual temperature + title: mean annual temperature + examples: + - value: 12.5 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean annual temperature + is_a: core field + slot_uri: MIXS:0000642 + multivalued: false + range: string + antibiotic_regm: + name: antibiotic_regm + annotations: + expected_value: + tag: expected_value + value: antibiotic name;antibiotic amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: milligram + occurrence: + tag: occurrence + value: m + description: Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens + title: antibiotic regimen + examples: + - value: penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - antibiotic regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000553 + multivalued: false + range: string + api: + name: api + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degrees API + occurrence: + tag: occurrence + value: '1' + description: 'API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1° API)' + title: API gravity + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - API gravity + is_a: core field + slot_uri: MIXS:0000157 + multivalued: false + range: string + arch_struc: + name: arch_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: An architectural structure is a human-made, free-standing, immobile outdoor construction + title: architectural structure + examples: + - value: shed + from_schema: https://example.com/nmdc_submission_schema + aliases: + - architectural structure + is_a: core field + slot_uri: MIXS:0000774 + multivalued: false + range: arch_struc_enum + aromatics_pc: + name: aromatics_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene (SARA) is an analysis method that divides crude oil components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: aromatics wt% + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - aromatics wt% + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000133 + multivalued: false + range: string + asphaltenes_pc: + name: asphaltenes_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene (SARA) is an analysis method that divides crude oil components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: asphaltenes wt% + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - asphaltenes wt% + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000135 + multivalued: false + range: string + atmospheric_data: + name: atmospheric_data + annotations: + expected_value: + tag: expected_value + value: atmospheric data name;measurement value + occurrence: + tag: occurrence + value: m + description: Measurement of atmospheric data; can include multiple data + title: atmospheric data + examples: + - value: wind speed;9 knots + from_schema: https://example.com/nmdc_submission_schema + aliases: + - atmospheric data + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0001097 + multivalued: false + range: string + avg_dew_point: + name: avg_dew_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day + title: average dew point + examples: + - value: 25.5 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - average dew point + is_a: core field + slot_uri: MIXS:0000141 + multivalued: false + range: string + avg_occup: + name: avg_occup + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room. + title: average daily occupancy + examples: + - value: '2' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - average daily occupancy + is_a: core field + slot_uri: MIXS:0000775 + multivalued: false + range: string + avg_temp: + name: avg_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day + title: average temperature + examples: + - value: 12.5 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - average temperature + is_a: core field + slot_uri: MIXS:0000142 + multivalued: false + range: string + bac_prod: + name: bac_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Bacterial production in the water column measured by isotope uptake + title: bacterial production + examples: + - value: 5 milligram per cubic meter per day + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bacterial production + is_a: core field + slot_uri: MIXS:0000683 + multivalued: false + range: string + bac_resp: + name: bac_resp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day, micromole oxygen per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial respiration in the water column + title: bacterial respiration + examples: + - value: 300 micromole oxygen per liter per hour + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bacterial respiration + is_a: core field + slot_uri: MIXS:0000684 + multivalued: false + range: string + bacteria_carb_prod: + name: bacteria_carb_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial carbon production + title: bacterial carbon production + examples: + - value: 2.53 microgram per liter per hour + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bacterial carbon production + is_a: core field + slot_uri: MIXS:0000173 + multivalued: false + range: string + barometric_press: + name: barometric_press + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millibar + occurrence: + tag: occurrence + value: '1' + description: Force per unit area exerted against a surface by the weight of air above that surface + title: barometric pressure + examples: + - value: 5 millibar + from_schema: https://example.com/nmdc_submission_schema + aliases: + - barometric pressure + is_a: core field + slot_uri: MIXS:0000096 + multivalued: false + range: string + basin: + name: basin + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the basin (e.g. Campos) + title: basin name + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - basin name + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000290 + multivalued: false + range: string + bathroom_count: + name: bathroom_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of bathrooms in the building + title: bathroom count + examples: + - value: '1' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bathroom count + is_a: core field + slot_uri: MIXS:0000776 + multivalued: false + range: string + bedroom_count: + name: bedroom_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of bedrooms in the building + title: bedroom count + examples: + - value: '2' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bedroom count + is_a: core field + slot_uri: MIXS:0000777 + multivalued: false + range: string + benzene: + name: benzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of benzene in the sample + title: benzene + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - benzene + is_a: core field + slot_uri: MIXS:0000153 + multivalued: false + range: string + biochem_oxygen_dem: + name: biochem_oxygen_dem + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period + title: biochemical oxygen demand + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biochemical oxygen demand + is_a: core field + slot_uri: MIXS:0000653 + multivalued: false + range: string + biocide: + name: biocide + annotations: + expected_value: + tag: expected_value + value: name;name;timestamp + occurrence: + tag: occurrence + value: '1' + description: List of biocides (commercial name of product and supplier) and date of administration + title: biocide administration + examples: + - value: ALPHA 1427;Baker Hughes;2008-01-23 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biocide administration + is_a: core field + string_serialization: '{text};{text};{timestamp}' + slot_uri: MIXS:0001011 + multivalued: false + range: string + biocide_admin_method: + name: biocide_admin_method + annotations: + expected_value: + tag: expected_value + value: measurement value;frequency;duration;duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; weekly; 4 hr; 3 days) + title: biocide administration method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biocide administration method + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration};{duration}' + slot_uri: MIXS:0000456 + multivalued: false + range: string + biol_stat: + name: biol_stat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The level of genome modification. + title: biological status + examples: + - value: natural + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biological status + is_a: core field + slot_uri: MIXS:0000858 + multivalued: false + range: biol_stat_enum + biomass: + name: biomass + annotations: + expected_value: + tag: expected_value + value: biomass type;measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram + occurrence: + tag: occurrence + value: m + description: Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements + title: biomass + examples: + - value: total;20 gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biomass + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000174 + multivalued: false + range: string + biotic_regm: + name: biotic_regm + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi. + title: biotic regimen + examples: + - value: sample inoculated with Rhizobium spp. Culture + from_schema: https://example.com/nmdc_submission_schema + aliases: + - biotic regimen + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001038 + multivalued: false + range: string + biotic_relationship: + name: biotic_relationship + annotations: + expected_value: + tag: expected_value + value: enumeration + description: Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object + title: observed biotic relationship + examples: + - value: free living + from_schema: https://example.com/nmdc_submission_schema + aliases: + - observed biotic relationship + is_a: nucleic acid sequence source field + slot_uri: MIXS:0000028 + multivalued: false + range: biotic_relationship_enum + bishomohopanol: + name: bishomohopanol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, microgram per gram + occurrence: + tag: occurrence + value: '1' + description: Concentration of bishomohopanol + title: bishomohopanol + examples: + - value: 14 microgram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bishomohopanol + is_a: core field + slot_uri: MIXS:0000175 + multivalued: false + range: string + blood_press_diast: + name: blood_press_diast + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter mercury + occurrence: + tag: occurrence + value: '1' + description: Resting diastolic blood pressure, measured as mm mercury + title: host blood pressure diastolic + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host blood pressure diastolic + is_a: core field + slot_uri: MIXS:0000258 + multivalued: false + range: string + blood_press_syst: + name: blood_press_syst + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter mercury + occurrence: + tag: occurrence + value: '1' + description: Resting systolic blood pressure, measured as mm mercury + title: host blood pressure systolic + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host blood pressure systolic + is_a: core field + slot_uri: MIXS:0000259 + multivalued: false + range: string + bromide: + name: bromide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of bromide + title: bromide + examples: + - value: 0.05 parts per million + from_schema: https://example.com/nmdc_submission_schema + aliases: + - bromide + is_a: core field + slot_uri: MIXS:0000176 + multivalued: false + range: string + build_docs: + name: build_docs + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building design, construction and operation documents + title: design, construction, and operation documents + examples: + - value: maintenance plans + from_schema: https://example.com/nmdc_submission_schema + aliases: + - design, construction, and operation documents + is_a: core field + slot_uri: MIXS:0000787 + multivalued: false + range: build_docs_enum + build_occup_type: + name: build_occup_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: The primary function for which a building or discrete part of a building is intended to be used + title: building occupancy type + examples: + - value: market + from_schema: https://example.com/nmdc_submission_schema + aliases: + - building occupancy type + is_a: core field + slot_uri: MIXS:0000761 + multivalued: true + range: build_occup_type_enum + building_setting: + name: building_setting + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A location (geography) where a building is set + title: building setting + examples: + - value: rural + from_schema: https://example.com/nmdc_submission_schema + aliases: + - building setting + is_a: core field + slot_uri: MIXS:0000768 + multivalued: false + range: building_setting_enum + built_struc_age: + name: built_struc_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: year + occurrence: + tag: occurrence + value: '1' + description: The age of the built structure since construction + title: built structure age + examples: + - value: '15' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - built structure age + is_a: core field + slot_uri: MIXS:0000145 + multivalued: false + range: string + built_struc_set: + name: built_struc_set + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The characterization of the location of the built structure as high or low human density + title: built structure setting + examples: + - value: rural + from_schema: https://example.com/nmdc_submission_schema + aliases: + - built structure setting + is_a: core field + string_serialization: '[urban|rural]' + slot_uri: MIXS:0000778 + multivalued: false + range: string + built_struc_type: + name: built_struc_type + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: A physical structure that is a body or assemblage of bodies in space to form a system capable of supporting loads + title: built structure type + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - built structure type + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000721 + multivalued: false + range: string + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - calcium + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + range: string + carb_dioxide: + name: carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Carbon dioxide (gas) amount or concentration at the time of sampling + title: carbon dioxide + examples: + - value: 410 parts per million + from_schema: https://example.com/nmdc_submission_schema + aliases: + - carbon dioxide + is_a: core field + slot_uri: MIXS:0000097 + multivalued: false + range: string + carb_monoxide: + name: carb_monoxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Carbon monoxide (gas) amount or concentration at the time of sampling + title: carbon monoxide + examples: + - value: 0.1 parts per million + from_schema: https://example.com/nmdc_submission_schema + aliases: + - carbon monoxide + is_a: core field + slot_uri: MIXS:0000098 + multivalued: false + range: string + carb_nitro_ratio: + name: carb_nitro_ratio + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ratio of amount or concentrations of carbon to nitrogen + title: carbon/nitrogen ratio + examples: + - value: '0.417361111' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - carbon/nitrogen ratio + is_a: core field + slot_uri: MIXS:0000310 + multivalued: false + range: string + ceil_area: + name: ceil_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The area of the ceiling space within the room + title: ceiling area + examples: + - value: 25 square meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling area + is_a: core field + slot_uri: MIXS:0000148 + multivalued: false + range: string + ceil_cond: + name: ceil_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the ceiling at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: ceiling condition + examples: + - value: damaged + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling condition + is_a: core field + slot_uri: MIXS:0000779 + multivalued: false + range: ceil_cond_enum + ceil_finish_mat: + name: ceil_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of material used to finish a ceiling + title: ceiling finish material + examples: + - value: stucco + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling finish material + is_a: core field + slot_uri: MIXS:0000780 + multivalued: false + range: ceil_finish_mat_enum + ceil_struc: + name: ceil_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The construction format of the ceiling + title: ceiling structure + examples: + - value: concrete + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling structure + is_a: core field + string_serialization: '[wood frame|concrete]' + slot_uri: MIXS:0000782 + multivalued: false + range: string + ceil_texture: + name: ceil_texture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The feel, appearance, or consistency of a ceiling surface + title: ceiling texture + examples: + - value: popcorn + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling texture + is_a: core field + slot_uri: MIXS:0000783 + multivalued: false + range: ceil_texture_enum + ceil_thermal_mass: + name: ceil_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the ceiling to provide inertia against temperature fluctuations. Generally this means concrete that is exposed. A metal deck that supports a concrete slab will act thermally as long as it is exposed to room air flow + title: ceiling thermal mass + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling thermal mass + is_a: core field + slot_uri: MIXS:0000143 + multivalued: false + range: string + ceil_type: + name: ceil_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of ceiling according to the ceiling's appearance or construction + title: ceiling type + examples: + - value: coffered + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling type + is_a: core field + slot_uri: MIXS:0000784 + multivalued: false + range: ceil_type_enum + ceil_water_mold: + name: ceil_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the ceiling + title: ceiling signs of water/mold + examples: + - value: presence of mold visible + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ceiling signs of water/mold + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000781 + multivalued: false + range: string + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11T20:00Z + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chemical administration + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + range: string + chem_mutagen: + name: chem_mutagen + annotations: + expected_value: + tag: expected_value + value: mutagen name;mutagen amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: m + description: Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens + title: chemical mutagen + examples: + - value: nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chemical mutagen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000555 + multivalued: false + range: string + chem_oxygen_dem: + name: chem_oxygen_dem + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite + title: chemical oxygen demand + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chemical oxygen demand + is_a: core field + slot_uri: MIXS:0000656 + multivalued: false + range: string + chem_treat_method: + name: chem_treat_method + annotations: + expected_value: + tag: expected_value + value: measurement value;frequency;duration;duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Method of chemical administration(dose, frequency, duration, time elapsed between administration and sampling) (e.g. 50 mg/l; twice a week; 1 hr; 0 days) + title: chemical treatment method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chemical treatment method + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration};{duration};{duration}' + slot_uri: MIXS:0000457 + multivalued: false + range: string + chem_treatment: + name: chem_treatment + annotations: + expected_value: + tag: expected_value + value: name;name;timestamp + occurrence: + tag: occurrence + value: '1' + description: List of chemical compounds administered upstream the sampling location where sampling occurred (e.g. Glycols, H2S scavenger, corrosion and scale inhibitors, demulsifiers, and other production chemicals etc.). The commercial name of the product and name of the supplier should be provided. The date of administration should also be included + title: chemical treatment + examples: + - value: ACCENT 1125;DOW;2010-11-17 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chemical treatment + is_a: core field + string_serialization: '{text};{text};{timestamp}' + slot_uri: MIXS:0001012 + multivalued: false + range: string + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chloride + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + range: string + chlorophyll: + name: chlorophyll + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter, microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of chlorophyll + title: chlorophyll + examples: + - value: 5 milligram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - chlorophyll + is_a: core field + slot_uri: MIXS:0000177 + multivalued: false + range: string + climate_environment: + name: climate_environment + annotations: + expected_value: + tag: expected_value + value: climate name;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates + title: climate environment + examples: + - value: tropical climate;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - climate environment + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001040 + multivalued: false + range: string + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: 'The time of sampling, either as an instance (single point in time) or interval. In case no exact time is available, the date/time can be right truncated i.e. all of these are valid times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008; Except: 2008-01; 2008 all are ISO8601 compliant' + title: collection date + examples: + - value: 2018-05-11T10:00:00+01:00; 2018-05-11 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - collection date + is_a: environment field + slot_uri: MIXS:0000011 + multivalued: false + range: string + collection_date_inc: + name: collection_date_inc + description: Date the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:collection_date + rank: 2 + string_serialization: '{date, arbitrary precision}' + slot_group: MIxS Inspired + recommended: true + collection_time: + name: collection_time + description: The time of sampling, either as an instance (single point) or interval. + title: collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:collection_date + rank: 1 + string_serialization: '{time, seconds optional}' + slot_group: MIxS Inspired + recommended: true + collection_time_inc: + name: collection_time_inc + description: Time the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:collection_date + rank: 3 + string_serialization: '{time, seconds optional}' + slot_group: MIxS Inspired + recommended: true + conduc: + name: conduc + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliSiemens per centimeter + occurrence: + tag: occurrence + value: '1' + description: Electrical conductivity of water + title: conductivity + examples: + - value: 10 milliSiemens per centimeter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - conductivity + is_a: core field + slot_uri: MIXS:0000692 + multivalued: false + range: string + cool_syst_id: + name: cool_syst_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: The cooling system identifier + title: cooling system identifier + examples: + - value: '12345' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - cooling system identifier + is_a: core field + slot_uri: MIXS:0000785 + multivalued: false + range: string + crop_rotation: + name: crop_rotation + annotations: + expected_value: + tag: expected_value + value: crop rotation status;schedule + occurrence: + tag: occurrence + value: '1' + description: Whether or not crop is rotated, and if yes, rotation schedule + title: history/crop rotation + examples: + - value: yes;R2/2017-01-01/2018-12-31/P6M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/crop rotation + is_a: core field + string_serialization: '{boolean};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000318 + multivalued: false + range: string + cult_root_med: + name: cult_root_med + annotations: + expected_value: + tag: expected_value + value: name, PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors. + title: culture rooting medium + examples: + - value: http://himedialabs.com/TD/PT158.pdf + from_schema: https://example.com/nmdc_submission_schema + aliases: + - culture rooting medium + is_a: core field + string_serialization: '{text}|{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001041 + multivalued: false + range: string + cur_land_use: + name: cur_land_use + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Present state of sample site + title: current land use + examples: + - value: conifers + from_schema: https://example.com/nmdc_submission_schema + aliases: + - current land use + is_a: core field + slot_uri: MIXS:0001080 + multivalued: false + range: cur_land_use_enum + cur_vegetation: + name: cur_vegetation + annotations: + expected_value: + tag: expected_value + value: current vegetation type + occurrence: + tag: occurrence + value: '1' + description: Vegetation classification from one or more standard classification systems, or agricultural crop + title: current vegetation + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - current vegetation + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000312 + multivalued: false + range: string + cur_vegetation_meth: + name: cur_vegetation_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in vegetation classification + title: current vegetation method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - current vegetation method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000314 + multivalued: false + range: string + date_last_rain: + name: date_last_rain + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: The date of the last time it rained + title: date last rain + examples: + - value: 2018-05-11:T14:30Z + from_schema: https://example.com/nmdc_submission_schema + aliases: + - date last rain + is_a: core field + slot_uri: MIXS:0000786 + multivalued: false + range: string + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - density + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + range: string + depos_env: + name: depos_env + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If "other" is specified, please propose entry in "additional info" field + title: depositional environment + examples: + - value: Continental - Alluvial + from_schema: https://example.com/nmdc_submission_schema + aliases: + - depositional environment + is_a: core field + slot_uri: MIXS:0000992 + multivalued: false + range: depos_env_enum + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth + examples: + - value: 10 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - depth + is_a: environment field + slot_uri: MIXS:0000018 + multivalued: false + range: string + dew_point: + name: dew_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The temperature to which a given parcel of humid air must be cooled, at constant barometric pressure, for water vapor to condense into water. + title: dew point + examples: + - value: 22 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dew point + is_a: core field + slot_uri: MIXS:0000129 + multivalued: false + range: string + diether_lipids: + name: diether_lipids + annotations: + expected_value: + tag: expected_value + value: diether lipid name;measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of diether lipids; can include multiple types of diether lipids + title: diether lipids + examples: + - value: 0.2 nanogram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - diether lipids + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000178 + multivalued: false + range: string + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved carbon dioxide + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + range: string + diss_hydrogen: + name: diss_hydrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved hydrogen + title: dissolved hydrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved hydrogen + is_a: core field + slot_uri: MIXS:0000179 + multivalued: false + range: string + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved inorganic carbon + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + range: string + diss_inorg_nitro: + name: diss_inorg_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic nitrogen + title: dissolved inorganic nitrogen + examples: + - value: 761 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved inorganic nitrogen + is_a: core field + slot_uri: MIXS:0000698 + multivalued: false + range: string + diss_inorg_phosp: + name: diss_inorg_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic phosphorus in the sample + title: dissolved inorganic phosphorus + examples: + - value: 56.5 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved inorganic phosphorus + is_a: core field + slot_uri: MIXS:0000106 + multivalued: false + range: string + diss_iron: + name: diss_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved iron in the sample + title: dissolved iron + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved iron + is_a: core field + slot_uri: MIXS:0000139 + multivalued: false + range: string + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved organic carbon + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + range: string + diss_org_nitro: + name: diss_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 + title: dissolved organic nitrogen + examples: + - value: 0.05 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved organic nitrogen + is_a: core field + slot_uri: MIXS:0000162 + multivalued: false + range: string + diss_oxygen: + name: diss_oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen + title: dissolved oxygen + examples: + - value: 175 micromole per kilogram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved oxygen + is_a: core field + slot_uri: MIXS:0000119 + multivalued: false + range: string + diss_oxygen_fluid: + name: diss_oxygen_fluid + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic). + title: dissolved oxygen in fluids + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - dissolved oxygen in fluids + is_a: core field + slot_uri: MIXS:0000438 + multivalued: false + range: string + dna_absorb1: + name: dna_absorb1 + description: 260/280 measurement of DNA sample purity + title: DNA absorbance 260/280 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://example.com/nmdc_submission_schema + rank: 7 + string_serialization: '{float}' + slot_group: JGI-Metagenomics + range: float + recommended: true + dna_absorb2: + name: dna_absorb2 + description: 260/230 measurement of DNA sample purity + title: DNA absorbance 260/230 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://example.com/nmdc_submission_schema + rank: 8 + string_serialization: '{float}' + slot_group: JGI-Metagenomics + range: float + recommended: true + dna_concentration: + name: dna_concentration + title: DNA concentration in ng/ul + comments: + - Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000. + examples: + - value: '100' + from_schema: https://example.com/nmdc_submission_schema + rank: 5 + string_serialization: '{float}' + slot_group: JGI-Metagenomics + range: float + recommended: true + minimum_value: 0 + maximum_value: 2000 + dna_cont_type: + name: dna_cont_type + description: Tube or plate (96-well) + title: DNA container type + examples: + - value: plate + from_schema: https://example.com/nmdc_submission_schema + rank: 10 + slot_group: JGI-Metagenomics + range: JgiContTypeEnum + recommended: true + dna_cont_well: + name: dna_cont_well + title: DNA plate position + comments: + - Required when 'plate' is selected for container type. + - Leave blank if the sample will be shipped in a tube. + - JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation. + - For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8). + examples: + - value: B2 + from_schema: https://example.com/nmdc_submission_schema + rank: 11 + string_serialization: '{96 well plate pos}' + slot_group: JGI-Metagenomics + recommended: true + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + dna_container_id: + name: dna_container_id + title: DNA container label + comments: + - Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label. + examples: + - value: Pond_MT_041618 + from_schema: https://example.com/nmdc_submission_schema + rank: 9 + string_serialization: '{text < 20 characters}' + slot_group: JGI-Metagenomics + recommended: true + dna_dnase: + name: dna_dnase + title: DNase treatment DNA + comments: + - Note DNase treatment is required for all RNA samples. + examples: + - value: 'no' + from_schema: https://example.com/nmdc_submission_schema + rank: 13 + slot_group: JGI-Metagenomics + range: YesNoEnum + recommended: true + dna_isolate_meth: + name: dna_isolate_meth + description: Describe the method/protocol/kit used to extract DNA/RNA. + title: DNA isolation method + examples: + - value: phenol/chloroform extraction + from_schema: https://example.com/nmdc_submission_schema + rank: 16 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_project_contact: + name: dna_project_contact + title: DNA seq project contact + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: John Jones + from_schema: https://example.com/nmdc_submission_schema + rank: 18 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_samp_id: + name: dna_samp_id + title: DNA sample ID + todos: + - Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled? + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '187654' + from_schema: https://example.com/nmdc_submission_schema + rank: 3 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_sample_format: + name: dna_sample_format + description: Solution in which the DNA sample has been suspended + title: DNA sample format + examples: + - value: Water + from_schema: https://example.com/nmdc_submission_schema + rank: 12 + slot_group: JGI-Metagenomics + range: dna_sample_format_enum + recommended: true + dna_sample_name: + name: dna_sample_name + description: Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only. + title: DNA sample name + examples: + - value: JGI_pond_041618 + from_schema: https://example.com/nmdc_submission_schema + rank: 4 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_seq_project: + name: dna_seq_project + title: DNA seq project ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '1191234' + from_schema: https://example.com/nmdc_submission_schema + rank: 1 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_seq_project_name: + name: dna_seq_project_name + title: DNA seq project name + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: JGI Pond metagenomics + from_schema: https://example.com/nmdc_submission_schema + rank: 2 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_seq_project_pi: + name: dna_seq_project_pi + title: DNA seq project PI + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: Jane Johnson + from_schema: https://example.com/nmdc_submission_schema + rank: 17 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + dna_volume: + name: dna_volume + title: DNA volume in ul + comments: + - Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only. + examples: + - value: '25' + from_schema: https://example.com/nmdc_submission_schema + rank: 6 + string_serialization: '{float}' + slot_group: JGI-Metagenomics + range: float + recommended: true + minimum_value: 25 + maximum_value: 1000 + dnase_rna: + name: dnase_rna + title: DNase treated + comments: + - Note DNase treatment is required for all RNA samples. + examples: + - value: 'no' + from_schema: https://example.com/nmdc_submission_schema + rank: 13 + slot_group: JGI-Metatranscriptomics + range: YesNoEnum + recommended: true + door_comp_type: + name: door_comp_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The composite type of the door + title: door type, composite + examples: + - value: revolving + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door type, composite + is_a: core field + slot_uri: MIXS:0000795 + multivalued: false + range: door_comp_type_enum + door_cond: + name: door_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The phsical condition of the door + title: door condition + examples: + - value: new + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door condition + is_a: core field + slot_uri: MIXS:0000788 + multivalued: false + range: door_cond_enum + door_direct: + name: door_direct + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The direction the door opens + title: door direction of opening + examples: + - value: inward + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door direction of opening + is_a: core field + slot_uri: MIXS:0000789 + multivalued: false + range: door_direct_enum + door_loc: + name: door_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the door in the room + title: door location + examples: + - value: north + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door location + is_a: core field + slot_uri: MIXS:0000790 + multivalued: false + range: door_loc_enum + door_mat: + name: door_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The material the door is composed of + title: door material + examples: + - value: wood + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door material + is_a: core field + slot_uri: MIXS:0000791 + multivalued: false + range: door_mat_enum + door_move: + name: door_move + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of movement of the door + title: door movement + examples: + - value: swinging + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door movement + is_a: core field + slot_uri: MIXS:0000792 + multivalued: false + range: door_move_enum + door_size: + name: door_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The size of the door + title: door area or size + examples: + - value: 2.5 square meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door area or size + is_a: core field + slot_uri: MIXS:0000158 + multivalued: false + range: string + door_type: + name: door_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of door material + title: door type + examples: + - value: wooden + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door type + is_a: core field + slot_uri: MIXS:0000794 + multivalued: false + range: door_type_enum + door_type_metal: + name: door_type_metal + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of metal door + title: door type, metal + examples: + - value: hollow + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door type, metal + is_a: core field + slot_uri: MIXS:0000796 + multivalued: false + range: door_type_metal_enum + door_type_wood: + name: door_type_wood + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of wood door + title: door type, wood + examples: + - value: battened + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door type, wood + is_a: core field + slot_uri: MIXS:0000797 + multivalued: false + range: door_type_wood_enum + door_water_mold: + name: door_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on a door + title: door signs of water/mold + examples: + - value: presence of mold visible + from_schema: https://example.com/nmdc_submission_schema + aliases: + - door signs of water/mold + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000793 + multivalued: false + range: string + down_par: + name: down_par + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microEinstein per square meter per second, microEinstein per square centimeter per second + occurrence: + tag: occurrence + value: '1' + description: Visible waveband radiance and irradiance measurements in the water column + title: downward PAR + examples: + - value: 28.71 microEinstein per square meter per second + from_schema: https://example.com/nmdc_submission_schema + aliases: + - downward PAR + is_a: core field + slot_uri: MIXS:0000703 + multivalued: false + range: string + drainage_class: + name: drainage_class + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Drainage classification from a standard system such as the USDA system + title: drainage classification + examples: + - value: well + from_schema: https://example.com/nmdc_submission_schema + aliases: + - drainage classification + is_a: core field + slot_uri: MIXS:0001085 + multivalued: false + range: drainage_class_enum + drawings: + name: drawings + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents + title: drawings + examples: + - value: sketch + from_schema: https://example.com/nmdc_submission_schema + aliases: + - drawings + is_a: core field + slot_uri: MIXS:0000798 + multivalued: false + range: drawings_enum + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://gold.jgi.doe.gov/help + is_a: gold_path_field + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://gold.jgi.doe.gov/help + is_a: gold_path_field + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://gold.jgi.doe.gov/help + is_a: gold_path_field + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://gold.jgi.doe.gov/help + is_a: gold_path_field + efficiency_percent: + name: efficiency_percent + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Percentage of volatile solids removed from the anaerobic digestor + title: efficiency percent + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - efficiency percent + is_a: core field + slot_uri: MIXS:0000657 + multivalued: false + range: string + elev: + name: elev + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation + examples: + - value: 100 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - elevation + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + range: string + elevator: + name: elevator + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of elevators within the built structure + title: elevator count + examples: + - value: '2' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - elevator count + is_a: core field + slot_uri: MIXS:0000799 + multivalued: false + range: string + emsl_store_temp: + name: emsl_store_temp + description: The temperature at which the sample should be stored upon delivery to EMSL + title: EMSL sample storage temperature, deg. C + todos: + - add 'see_alsos' with link to NEXUS info + comments: + - Enter a temperature in celsius. Numeric portion only. + examples: + - value: '-80' + from_schema: https://example.com/nmdc_submission_schema + rank: 4 + string_serialization: '{float}' + slot_group: EMSL + recommended: true + emulsions: + name: emulsions + annotations: + expected_value: + tag: expected_value + value: emulsion name;measurement value + preferred_unit: + tag: preferred_unit + value: gram per liter + occurrence: + tag: occurrence + value: m + description: Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types + title: emulsions + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - emulsions + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000660 + multivalued: false + range: string + env_broad_scale: + name: env_broad_scale + annotations: + expected_value: + tag: expected_value + value: The major environment type(s) where the sample was collected. Recommend subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one or more pipes. + description: 'Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS' + title: broad-scale environmental context + examples: + - value: oceanic epipelagic zone biome [ENVO:01000033] for annotating a water sample from the photic zone in middle of the Atlantic Ocean + from_schema: https://example.com/nmdc_submission_schema + aliases: + - broad-scale environmental context + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + range: string + env_local_scale: + name: env_local_scale + annotations: + expected_value: + tag: expected_value + value: Environmental entities having causal influences upon the entity at time of sampling. + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + examples: + - value: 'litter layer [ENVO:01000338]; Annotating a pooled sample taken from various vegetation layers in a forest consider: canopy [ENVO:00000047]|herb and fern layer [ENVO:01000337]|litter layer [ENVO:01000338]|understory [01000335]|shrub layer [ENVO:01000336].' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - local environmental context + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + range: string + env_medium: + name: env_medium + annotations: + expected_value: + tag: expected_value + value: The material displaced by the entity at time of sampling. Recommend subclasses of environmental material [ENVO:00010483]. + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + examples: + - value: 'soil [ENVO:00001998]; Annotating a fish swimming in the upper 100 m of the Atlantic Ocean, consider: ocean water [ENVO:00002151]. Example: Annotating a duck on a pond consider: pond water [ENVO:00002228]|air [ENVO_00002005]' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - environmental medium + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + range: string + env_package: + name: env_package + description: MIxS extension for reporting of measurements and observations obtained from one or more of the environments where the sample was obtained. All environmental packages listed here are further defined in separate subtables. By giving the name of the environmental package, a selection of fields can be made from the subtables and can be reported + in_subset: + - mixs extension + from_schema: https://example.com/nmdc_submission_schema + aliases: + - environmental package + is_a: attribute + range: string + multivalued: false + escalator: + name: escalator + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of escalators within the built structure + title: escalator count + examples: + - value: '4' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - escalator count + is_a: core field + slot_uri: MIXS:0000800 + multivalued: false + range: string + ethylbenzene: + name: ethylbenzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ethylbenzene in the sample + title: ethylbenzene + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ethylbenzene + is_a: core field + slot_uri: MIXS:0000155 + multivalued: false + range: string + exp_duct: + name: exp_duct + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The amount of exposed ductwork in the room + title: exposed ductwork + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - exposed ductwork + is_a: core field + slot_uri: MIXS:0000144 + multivalued: false + range: string + exp_pipe: + name: exp_pipe + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of exposed pipes in the room + title: exposed pipes + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - exposed pipes + is_a: core field + slot_uri: MIXS:0000220 + multivalued: false + range: string + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - experimental factor + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + range: string + experimental_factor_other: + name: experimental_factor_other + description: Other details about your sample that you feel can't be accurately represented in the available columns. + title: experimental factor- other + comments: + - This slot accepts open-ended text about your sample. + - We recommend using key:value pairs. + - Provided pairs will be considered for inclusion as future slots/terms in this data collection template. + examples: + - value: 'experimental treatment: value' + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:experimental_factor|additional_info + rank: 7 + string_serialization: '{text}' + slot_group: MIxS Inspired + recommended: true + ext_door: + name: ext_door + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of exterior doors in the built structure + title: exterior door count + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - exterior door count + is_a: core field + slot_uri: MIXS:0000170 + multivalued: false + range: string + ext_wall_orient: + name: ext_wall_orient + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The orientation of the exterior wall + title: orientations of exterior wall + examples: + - value: northwest + from_schema: https://example.com/nmdc_submission_schema + aliases: + - orientations of exterior wall + is_a: core field + slot_uri: MIXS:0000817 + multivalued: false + range: ext_wall_orient_enum + ext_window_orient: + name: ext_window_orient + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The compass direction the exterior window of the room is facing + title: orientations of exterior window + examples: + - value: southwest + from_schema: https://example.com/nmdc_submission_schema + aliases: + - orientations of exterior window + is_a: core field + slot_uri: MIXS:0000818 + multivalued: false + range: ext_window_orient_enum + extreme_event: + name: extreme_event + annotations: + expected_value: + tag: expected_value + value: date + occurrence: + tag: occurrence + value: '1' + description: Unusual physical events that may have affected microbial populations + title: history/extreme events + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/extreme events + is_a: core field + slot_uri: MIXS:0000320 + multivalued: false + range: string + fao_class: + name: fao_class + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups + title: soil_taxonomic/FAO classification + examples: + - value: Luvisols + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil_taxonomic/FAO classification + is_a: core field + slot_uri: MIXS:0001083 + multivalued: false + range: fao_class_enum + fertilizer_regm: + name: fertilizer_regm + annotations: + expected_value: + tag: expected_value + value: fertilizer name;fertilizer amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens + title: fertilizer regimen + examples: + - value: urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - fertilizer regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000556 + multivalued: false + range: string + field: + name: field + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the hydrocarbon field (e.g. Albacora) + title: field name + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - field name + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000291 + multivalued: false + range: string + filter_method: + name: filter_method + description: Type of filter used or how the sample was filtered + title: filter method + comments: + - describe the filter or provide a catalog number and manufacturer + examples: + - value: C18 + - value: Basix PES, 13-100-106 FisherSci + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:filter_type + rank: 6 + string_serialization: '{text}' + slot_group: MIxS Inspired + recommended: true + filter_type: + name: filter_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: A device which removes solid particulates or airborne molecular contaminants + title: filter type + examples: + - value: HEPA + from_schema: https://example.com/nmdc_submission_schema + aliases: + - filter type + is_a: core field + slot_uri: MIXS:0000765 + multivalued: true + range: filter_type_enum + fire: + name: fire + annotations: + expected_value: + tag: expected_value + value: date + occurrence: + tag: occurrence + value: '1' + description: Historical and/or physical evidence of fire + title: history/fire + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/fire + is_a: core field + slot_uri: MIXS:0001086 + multivalued: false + range: string + fireplace_type: + name: fireplace_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A firebox with chimney + title: fireplace type + examples: + - value: wood burning + from_schema: https://example.com/nmdc_submission_schema + aliases: + - fireplace type + is_a: core field + string_serialization: '[gas burning|wood burning]' + slot_uri: MIXS:0000802 + multivalued: false + range: string + flooding: + name: flooding + annotations: + expected_value: + tag: expected_value + value: date + occurrence: + tag: occurrence + value: '1' + description: Historical and/or physical evidence of flooding + title: history/flooding + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/flooding + is_a: core field + slot_uri: MIXS:0000319 + multivalued: false + range: string + floor_age: + name: floor_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: years, weeks, days + occurrence: + tag: occurrence + value: '1' + description: The time period since installment of the carpet or flooring + title: floor age + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor age + is_a: core field + slot_uri: MIXS:0000164 + multivalued: false + range: string + floor_area: + name: floor_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The area of the floor space within the room + title: floor area + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor area + is_a: core field + slot_uri: MIXS:0000165 + multivalued: false + range: string + floor_cond: + name: floor_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: floor condition + examples: + - value: new + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor condition + is_a: core field + slot_uri: MIXS:0000803 + multivalued: false + range: floor_cond_enum + floor_count: + name: floor_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of floors in the building, including basements and mechanical penthouse + title: floor count + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor count + is_a: core field + slot_uri: MIXS:0000225 + multivalued: false + range: string + floor_finish_mat: + name: floor_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The floor covering type; the finished surface that is walked on + title: floor finish material + examples: + - value: carpet + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor finish material + is_a: core field + slot_uri: MIXS:0000804 + multivalued: false + range: floor_finish_mat_enum + floor_struc: + name: floor_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Refers to the structural elements and subfloor upon which the finish flooring is installed + title: floor structure + examples: + - value: concrete + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor structure + is_a: core field + slot_uri: MIXS:0000806 + multivalued: false + range: floor_struc_enum + floor_thermal_mass: + name: floor_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the floor to provide inertia against temperature fluctuations + title: floor thermal mass + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor thermal mass + is_a: core field + slot_uri: MIXS:0000166 + multivalued: false + range: string + floor_water_mold: + name: floor_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew in a room + title: floor signs of water/mold + examples: + - value: ceiling discoloration + from_schema: https://example.com/nmdc_submission_schema + aliases: + - floor signs of water/mold + is_a: core field + slot_uri: MIXS:0000805 + multivalued: false + range: floor_water_mold_enum + fluor: + name: fluor + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram chlorophyll a per cubic meter, volts + occurrence: + tag: occurrence + value: '1' + description: Raw or converted fluorescence of water + title: fluorescence + examples: + - value: 2.5 volts + from_schema: https://example.com/nmdc_submission_schema + aliases: + - fluorescence + is_a: core field + slot_uri: MIXS:0000704 + multivalued: false + range: string + freq_clean: + name: freq_clean + annotations: + expected_value: + tag: expected_value + value: enumeration or {text} + occurrence: + tag: occurrence + value: '1' + description: The number of times the sample location is cleaned. Frequency of cleaning might be on a Daily basis, Weekly, Monthly, Quarterly or Annually. + title: frequency of cleaning + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - frequency of cleaning + is_a: core field + slot_uri: MIXS:0000226 + multivalued: false + range: string + freq_cook: + name: freq_cook + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of times a meal is cooked per week + title: frequency of cooking + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - frequency of cooking + is_a: core field + slot_uri: MIXS:0000227 + multivalued: false + range: string + fungicide_regm: + name: fungicide_regm + annotations: + expected_value: + tag: expected_value + value: fungicide name;fungicide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens + title: fungicide regimen + examples: + - value: bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - fungicide regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000557 + multivalued: false + range: string + furniture: + name: furniture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The types of furniture present in the sampled room + title: furniture + examples: + - value: chair + from_schema: https://example.com/nmdc_submission_schema + aliases: + - furniture + is_a: core field + slot_uri: MIXS:0000807 + multivalued: false + range: furniture_enum + gaseous_environment: + name: gaseous_environment + annotations: + expected_value: + tag: expected_value + value: gaseous compound name;gaseous compound amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens + title: gaseous environment + examples: + - value: nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - gaseous environment + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000558 + multivalued: false + range: string + gaseous_substances: + name: gaseous_substances + annotations: + expected_value: + tag: expected_value + value: gaseous substance name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances + title: gaseous substances + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - gaseous substances + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000661 + multivalued: false + range: string + gender_restroom: + name: gender_restroom + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The gender type of the restroom + title: gender of restroom + examples: + - value: male + from_schema: https://example.com/nmdc_submission_schema + aliases: + - gender of restroom + is_a: core field + slot_uri: MIXS:0000808 + multivalued: false + range: gender_restroom_enum + genetic_mod: + name: genetic_mod + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection + title: genetic modification + examples: + - value: aox1A transgenic + from_schema: https://example.com/nmdc_submission_schema + aliases: + - genetic modification + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0000859 + multivalued: false + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology (http://purl.bioontology.org/ontology/GAZ) + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - geographic location (country and/or sea,region) + is_a: environment field + string_serialization: '{term}: {term}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + range: string + glucosidase_act: + name: glucosidase_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mol per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of glucosidase activity + title: glucosidase activity + examples: + - value: 5 mol per liter per hour + from_schema: https://example.com/nmdc_submission_schema + aliases: + - glucosidase activity + is_a: core field + slot_uri: MIXS:0000137 + multivalued: false + range: string + gravidity: + name: gravidity + annotations: + expected_value: + tag: expected_value + value: gravidity status;timestamp + occurrence: + tag: occurrence + value: '1' + description: Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used + title: gravidity + examples: + - value: yes;due date:2018-05-11 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - gravidity + is_a: core field + string_serialization: '{boolean};{timestamp}' + slot_uri: MIXS:0000875 + multivalued: false + range: string + gravity: + name: gravity + annotations: + expected_value: + tag: expected_value + value: gravity factor value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: meter per square second, g + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments + title: gravity + examples: + - value: 12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - gravity + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000559 + multivalued: false + range: string + growth_facil: + name: growth_facil + annotations: + expected_value: + tag: expected_value + value: free text or CO + occurrence: + tag: occurrence + value: '1' + description: 'Type of facility where the sampled plant was grown; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field. Alternatively use Crop Ontology (CO) terms, see http://www.cropontology.org/ontology/CO_715/Crop%20Research' + title: growth facility + examples: + - value: Growth chamber [CO_715:0000189] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - growth facility + is_a: core field + string_serialization: '{text}|{termLabel} {[termID]}' + slot_uri: MIXS:0001043 + multivalued: false + range: string + growth_habit: + name: growth_habit + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Characteristic shape, appearance or growth form of a plant species + title: growth habit + examples: + - value: spreading + from_schema: https://example.com/nmdc_submission_schema + aliases: + - growth habit + is_a: core field + slot_uri: MIXS:0001044 + multivalued: false + range: growth_habit_enum + growth_hormone_regm: + name: growth_hormone_regm + annotations: + expected_value: + tag: expected_value + value: growth hormone name;growth hormone amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens + title: growth hormone regimen + examples: + - value: abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - growth hormone regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000560 + multivalued: false + range: string + hall_count: + name: hall_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The total count of hallways and cooridors in the built structure + title: hallway/corridor count + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hallway/corridor count + is_a: core field + slot_uri: MIXS:0000228 + multivalued: false + range: string + handidness: + name: handidness + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The handidness of the individual sampled + title: handidness + examples: + - value: right handedness + from_schema: https://example.com/nmdc_submission_schema + aliases: + - handidness + is_a: core field + slot_uri: MIXS:0000809 + multivalued: false + range: handidness_enum + hc_produced: + name: hc_produced + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon type produced + examples: + - value: Gas + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hydrocarbon type produced + is_a: core field + slot_uri: MIXS:0000989 + multivalued: false + range: hc_produced_enum + hcr: + name: hcr + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main Hydrocarbon Resource type. The term "Hydrocarbon Resource" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon resource type + examples: + - value: Oil Sand + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hydrocarbon resource type + is_a: core field + slot_uri: MIXS:0000988 + multivalued: false + range: hcr_enum + hcr_fw_salinity: + name: hcr_fw_salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS + title: formation water salinity + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - formation water salinity + is_a: core field + slot_uri: MIXS:0000406 + multivalued: false + range: string + hcr_geol_age: + name: hcr_geol_age + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If "other" is specified, please propose entry in "additional info" field' + title: hydrocarbon resource geological age + examples: + - value: Silurian + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hydrocarbon resource geological age + is_a: core field + slot_uri: MIXS:0000993 + multivalued: false + range: hcr_geol_age_enum + hcr_pressure: + name: hcr_pressure + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: atmosphere, kilopascal + occurrence: + tag: occurrence + value: '1' + description: Original pressure of the hydrocarbon resource + title: hydrocarbon resource original pressure + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hydrocarbon resource original pressure + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000395 + multivalued: false + range: string + hcr_temp: + name: hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Original temperature of the hydrocarbon resource + title: hydrocarbon resource original temperature + examples: + - value: 150-295 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - hydrocarbon resource original temperature + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000393 + multivalued: false + range: string + heat_cool_type: + name: heat_cool_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Methods of conditioning or heating a room or building + title: heating and cooling system type + examples: + - value: heat pump + from_schema: https://example.com/nmdc_submission_schema + aliases: + - heating and cooling system type + is_a: core field + slot_uri: MIXS:0000766 + multivalued: true + range: heat_cool_type_enum + heat_deliv_loc: + name: heat_deliv_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The location of heat delivery within the room + title: heating delivery locations + examples: + - value: north + from_schema: https://example.com/nmdc_submission_schema + aliases: + - heating delivery locations + is_a: core field + slot_uri: MIXS:0000810 + multivalued: false + range: heat_deliv_loc_enum + heat_sys_deliv_meth: + name: heat_sys_deliv_meth + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The method by which the heat is delivered through the system + title: heating system delivery method + examples: + - value: radiant + from_schema: https://example.com/nmdc_submission_schema + aliases: + - heating system delivery method + is_a: core field + string_serialization: '[conductive|radiant]' + slot_uri: MIXS:0000812 + multivalued: false + range: string + heat_system_id: + name: heat_system_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: The heating system identifier + title: heating system identifier + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - heating system identifier + is_a: core field + slot_uri: MIXS:0000833 + multivalued: false + range: string + heavy_metals: + name: heavy_metals + annotations: + expected_value: + tag: expected_value + value: heavy metal name;measurement value unit + preferred_unit: + tag: preferred_unit + value: microgram per gram + occurrence: + tag: occurrence + value: m + description: Heavy metals present in the sequenced sample and their concentrations. For multiple heavy metals and concentrations, add multiple copies of this field. + title: extreme_unusual_properties/heavy metals + examples: + - value: mercury;0.09 micrograms per gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - extreme_unusual_properties/heavy metals + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000652 + multivalued: false + range: string + heavy_metals_meth: + name: heavy_metals_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining heavy metals + title: extreme_unusual_properties/heavy metals method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - extreme_unusual_properties/heavy metals method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000343 + multivalued: false + range: string + height_carper_fiber: + name: height_carper_fiber + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: centimeter + occurrence: + tag: occurrence + value: '1' + description: The average carpet fiber height in the indoor environment + title: height carpet fiber mat + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - height carpet fiber mat + is_a: core field + slot_uri: MIXS:0000167 + multivalued: false + range: string + herbicide_regm: + name: herbicide_regm + annotations: + expected_value: + tag: expected_value + value: herbicide name;herbicide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: herbicide regimen + examples: + - value: atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - herbicide regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000561 + multivalued: false + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: soil horizon method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil horizon method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + range: string + host_age: + name: host_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: year, day, hour + occurrence: + tag: occurrence + value: '1' + description: Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees + title: host age + examples: + - value: 10 days + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host age + is_a: core field + slot_uri: MIXS:0000255 + multivalued: false + range: string + host_body_habitat: + name: host_body_habitat + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Original body habitat where the sample was obtained from + title: host body habitat + examples: + - value: nasopharynx + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host body habitat + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000866 + multivalued: false + range: string + host_body_product: + name: host_body_product + annotations: + expected_value: + tag: expected_value + value: FMA or UBERON + occurrence: + tag: occurrence + value: '1' + description: Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon + title: host body product + examples: + - value: Portion of mucus [fma66938] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host body product + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000888 + multivalued: false + range: string + host_body_site: + name: host_body_site + annotations: + expected_value: + tag: expected_value + value: FMA or UBERON + occurrence: + tag: occurrence + value: '1' + description: Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON + title: host body site + examples: + - value: gill [UBERON:0002535] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host body site + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000867 + multivalued: false + range: string + host_body_temp: + name: host_body_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Core body temperature of the host when sample was collected + title: host body temperature + examples: + - value: 15 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host body temperature + is_a: core field + slot_uri: MIXS:0000274 + multivalued: false + range: string + host_color: + name: host_color + annotations: + expected_value: + tag: expected_value + value: color + occurrence: + tag: occurrence + value: '1' + description: The color of host + title: host color + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host color + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000260 + multivalued: false + range: string + host_common_name: + name: host_common_name + annotations: + expected_value: + tag: expected_value + value: common name + occurrence: + tag: occurrence + value: '1' + description: Common name of the host. + title: host common name + examples: + - value: human + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host common name + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000248 + multivalued: false + range: string + host_diet: + name: host_diet + annotations: + expected_value: + tag: expected_value + value: diet type + occurrence: + tag: occurrence + value: m + description: Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types + title: host diet + examples: + - value: herbivore + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host diet + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000869 + multivalued: false + range: string + host_dry_mass: + name: host_dry_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Measurement of dry mass + title: host dry mass + examples: + - value: 500 gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host dry mass + is_a: core field + slot_uri: MIXS:0000257 + multivalued: false + range: string + host_family_relation: + name: host_family_relation + annotations: + expected_value: + tag: expected_value + value: relationship type;arbitrary identifier + occurrence: + tag: occurrence + value: m + description: Familial relationships to other hosts in the same study; can include multiple relationships + title: host family relationship + examples: + - value: offspring;Mussel25 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host family relationship + is_a: core field + string_serialization: '{text};{text}' + slot_uri: MIXS:0000872 + multivalued: false + range: string + host_genotype: + name: host_genotype + annotations: + expected_value: + tag: expected_value + value: genotype + occurrence: + tag: occurrence + value: '1' + description: Observed genotype + title: host genotype + examples: + - value: C57BL/6 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host genotype + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000365 + multivalued: false + range: string + host_growth_cond: + name: host_growth_cond + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Literature reference giving growth conditions of the host + title: host growth conditions + examples: + - value: https://academic.oup.com/icesjms/article/68/2/349/617247 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host growth conditions + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0000871 + multivalued: false + range: string + host_height: + name: host_height + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The height of subject + title: host height + examples: + - value: 0.1 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host height + is_a: core field + slot_uri: MIXS:0000264 + multivalued: false + range: string + host_last_meal: + name: host_last_meal + annotations: + expected_value: + tag: expected_value + value: content;duration + occurrence: + tag: occurrence + value: m + description: Content of last meal and time since feeding; can include multiple values + title: host last meal + examples: + - value: corn feed;P2H + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host last meal + is_a: core field + string_serialization: '{text};{duration}' + slot_uri: MIXS:0000870 + multivalued: false + range: string + host_length: + name: host_length + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The length of subject + title: host length + examples: + - value: 1 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host length + is_a: core field + slot_uri: MIXS:0000256 + multivalued: false + range: string + host_life_stage: + name: host_life_stage + annotations: + expected_value: + tag: expected_value + value: stage + occurrence: + tag: occurrence + value: '1' + description: Description of life stage of host + title: host life stage + examples: + - value: adult + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host life stage + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000251 + multivalued: false + range: string + host_phenotype: + name: host_phenotype + annotations: + expected_value: + tag: expected_value + value: PATO or HP + occurrence: + tag: occurrence + value: '1' + description: Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP + title: host phenotype + examples: + - value: elongated [PATO:0001154] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host phenotype + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000874 + multivalued: false + range: string + host_sex: + name: host_sex + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Gender or physical sex of the host. + title: host sex + examples: + - value: non-binary + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host sex + is_a: core field + slot_uri: MIXS:0000811 + multivalued: false + range: host_sex_enum + host_shape: + name: host_shape + annotations: + expected_value: + tag: expected_value + value: shape + occurrence: + tag: occurrence + value: '1' + description: Morphological shape of host + title: host shape + examples: + - value: round + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host shape + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000261 + multivalued: false + range: string + host_subject_id: + name: host_subject_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: A unique identifier by which each subject can be referred to, de-identified. + title: host subject id + examples: + - value: MPI123 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host subject id + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000861 + multivalued: false + range: string + host_subspecf_genlin: + name: host_subspecf_genlin + annotations: + expected_value: + tag: expected_value + value: Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar. + occurrence: + tag: occurrence + value: m + description: Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123. + title: host subspecific genetic lineage + examples: + - value: 'serovar:Newport, variety:glabrum, cultivar: Red Delicious' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host subspecific genetic lineage + is_a: core field + string_serialization: '{rank name}:{text}' + slot_uri: MIXS:0001318 + multivalued: false + range: string + host_substrate: + name: host_substrate + annotations: + expected_value: + tag: expected_value + value: substrate name + occurrence: + tag: occurrence + value: '1' + description: The growth substrate of the host. + title: host substrate + examples: + - value: rock + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host substrate + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000252 + multivalued: false + range: string + host_symbiont: + name: host_symbiont + annotations: + expected_value: + tag: expected_value + value: species name or common name + occurrence: + tag: occurrence + value: m + description: The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host. + title: observed host symbionts + examples: + - value: flukeworms + from_schema: https://example.com/nmdc_submission_schema + aliases: + - observed host symbionts + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001298 + multivalued: false + range: string + host_taxid: + name: host_taxid + annotations: + expected_value: + tag: expected_value + value: NCBI taxon identifier + occurrence: + tag: occurrence + value: '1' + description: NCBI taxon id of the host, e.g. 9606 + title: host taxid + comments: + - Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host taxid + is_a: core field + slot_uri: MIXS:0000250 + multivalued: false + range: string + host_tot_mass: + name: host_tot_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Total mass of the host at collection, the unit depends on host + title: host total mass + examples: + - value: 2500 gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host total mass + is_a: core field + slot_uri: MIXS:0000263 + multivalued: false + range: string + host_wet_mass: + name: host_wet_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Measurement of wet mass + title: host wet mass + examples: + - value: 1500 gram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - host wet mass + is_a: core field + slot_uri: MIXS:0000567 + multivalued: false + range: string + humidity: + name: humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter + occurrence: + tag: occurrence + value: '1' + description: Amount of water vapour in the air, at the time of sampling + title: humidity + examples: + - value: 25 gram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - humidity + is_a: core field + slot_uri: MIXS:0000100 + multivalued: false + range: string + humidity_regm: + name: humidity_regm + annotations: + expected_value: + tag: expected_value + value: humidity value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram per cubic meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: humidity regimen + examples: + - value: 25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - humidity regimen + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000568 + multivalued: false + range: string + indoor_space: + name: indoor_space + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A distinguishable space within a structure, the purpose for which discrete areas of a building is used + title: indoor space + examples: + - value: foyer + from_schema: https://example.com/nmdc_submission_schema + aliases: + - indoor space + is_a: core field + slot_uri: MIXS:0000763 + multivalued: false + range: indoor_space_enum + indoor_surf: + name: indoor_surf + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Type of indoor surface + title: indoor surface + examples: + - value: wall + from_schema: https://example.com/nmdc_submission_schema + aliases: + - indoor surface + is_a: core field + slot_uri: MIXS:0000764 + multivalued: false + range: indoor_surf_enum + indust_eff_percent: + name: indust_eff_percent + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Percentage of industrial effluents received by wastewater treatment plant + title: industrial effluent percent + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - industrial effluent percent + is_a: core field + slot_uri: MIXS:0000662 + multivalued: false + range: string + inorg_particles: + name: inorg_particles + annotations: + expected_value: + tag: expected_value + value: inorganic particle name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles + title: inorganic particles + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - inorganic particles + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000664 + multivalued: false + range: string + inside_lux: + name: inside_lux + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilowatt per square metre + occurrence: + tag: occurrence + value: '1' + description: The recorded value at sampling time (power density) + title: inside lux light + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - inside lux light + is_a: core field + slot_uri: MIXS:0000168 + multivalued: false + range: string + int_wall_cond: + name: int_wall_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the wall at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: interior wall condition + examples: + - value: damaged + from_schema: https://example.com/nmdc_submission_schema + aliases: + - interior wall condition + is_a: core field + slot_uri: MIXS:0000813 + multivalued: false + range: int_wall_cond_enum + isotope_exposure: + name: isotope_exposure + description: List isotope exposure or addition applied to your sample. + title: isotope exposure/addition + todos: + - Can we make the H218O correctly super and subscripted? + comments: + - This is required when your experimental design includes the use of isotopically labeled compounds + examples: + - value: 13C glucose + - value: H218O + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:chem_administration + rank: 16 + string_serialization: '{termLabel} {[termID]}; {timestamp}' + slot_group: MIxS Inspired + recommended: true + iw_bt_date_well: + name: iw_bt_date_well + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: Injection water breakthrough date per well following a secondary and/or tertiary recovery + title: injection water breakthrough date of specific well + examples: + - value: '2018-05-11' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - injection water breakthrough date of specific well + is_a: core field + slot_uri: MIXS:0001010 + multivalued: false + range: string + iwf: + name: iwf + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%) + title: injection water fraction + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - injection water fraction + is_a: core field + slot_uri: MIXS:0000455 + multivalued: false + range: string + last_clean: + name: last_clean + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: The last time the floor was cleaned (swept, mopped, vacuumed) + title: last time swept/mopped/vacuumed + examples: + - value: 2018-05-11:T14:30Z + from_schema: https://example.com/nmdc_submission_schema + aliases: + - last time swept/mopped/vacuumed + is_a: core field + slot_uri: MIXS:0000814 + multivalued: false + range: string + lat_lon: + name: lat_lon + annotations: + expected_value: + tag: expected_value + value: decimal degrees, limit to 8 decimal points + description: The geographical origin of the sample as defined by latitude and longitude. The values should be reported in decimal degrees and in WGS84 system + title: geographic location (latitude and longitude) + examples: + - value: 50.586825 6.408977 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - geographic location (latitude and longitude) + is_a: environment field + string_serialization: '{float} {float}' + slot_uri: MIXS:0000009 + multivalued: false + range: string + lbc_thirty: + name: lbc_thirty + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ppm CaCO3/pH + occurrence: + tag: occurrence + value: '1' + description: lime buffer capacity, determined after 30 minute incubation + title: lime buffer capacity (at 30 minutes) + comments: + - This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit + examples: + - value: 543 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + - https://secure.caes.uga.edu/extension/publications/files/pdf/C%20874_5.PDF + aliases: + - lbc_thirty + - lbc30 + - lime buffer capacity (at 30 minutes) + is_a: attribute + range: string + multivalued: false + lbceq: + name: lbceq + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ppm CaCO3/pH + occurrence: + tag: occurrence + value: '1' + description: lime buffer capacity, determined at equilibrium after 5 day incubation + title: lime buffer capacity (after 5 day incubation) + comments: + - This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit + examples: + - value: 1575 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - lbceq + - lime buffer capacity (at 5-day equilibrium) + is_a: attribute + range: string + multivalued: false + light_intensity: + name: light_intensity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: lux + occurrence: + tag: occurrence + value: '1' + description: Measurement of light intensity + title: light intensity + examples: + - value: 0.3 lux + from_schema: https://example.com/nmdc_submission_schema + aliases: + - light intensity + is_a: core field + slot_uri: MIXS:0000706 + multivalued: false + range: string + light_regm: + name: light_regm + annotations: + expected_value: + tag: expected_value + value: exposure type;light intensity;light quality + preferred_unit: + tag: preferred_unit + value: lux; micrometer, nanometer, angstrom + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving exposure to light, including both light intensity and quality. + title: light regimen + examples: + - value: incandescant light;10 lux;450 nanometer + from_schema: https://example.com/nmdc_submission_schema + aliases: + - light regimen + is_a: core field + string_serialization: '{text};{float} {unit};{float} {unit}' + slot_uri: MIXS:0000569 + multivalued: false + range: string + light_type: + name: light_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Application of light to achieve some practical or aesthetic effect. Lighting includes the use of both artificial light sources such as lamps and light fixtures, as well as natural illumination by capturing daylight. Can also include absence of light + title: light type + examples: + - value: desk lamp + from_schema: https://example.com/nmdc_submission_schema + aliases: + - light type + is_a: core field + slot_uri: MIXS:0000769 + multivalued: true + range: light_type_enum + link_class_info: + name: link_class_info + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Link to digitized soil maps or other soil classification information + title: link to classification information + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - link to classification information + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000329 + multivalued: false + range: string + link_climate_info: + name: link_climate_info + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Link to climate resource + title: link to climate information + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - link to climate information + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000328 + multivalued: false + range: string + lithology: + name: lithology + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If "other" is specified, please propose entry in "additional info" field' + title: lithology + examples: + - value: Volcanic + from_schema: https://example.com/nmdc_submission_schema + aliases: + - lithology + is_a: core field + slot_uri: MIXS:0000990 + multivalued: false + range: lithology_enum + local_class: + name: local_class + annotations: + expected_value: + tag: expected_value + value: local classification name + occurrence: + tag: occurrence + value: '1' + description: Soil classification based on local soil classification system + title: soil_taxonomic/local classification + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil_taxonomic/local classification + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000330 + multivalued: false + range: string + local_class_meth: + name: local_class_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the local soil classification + title: soil_taxonomic/local classification method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil_taxonomic/local classification method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000331 + multivalued: false + range: string + magnesium: + name: magnesium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter, parts per million, micromole per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of magnesium in the sample + title: magnesium + examples: + - value: 52.8 micromole per kilogram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - magnesium + is_a: core field + slot_uri: MIXS:0000431 + multivalued: false + range: string + manganese: + name: manganese + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg (ppm) + occurrence: + tag: occurrence + value: '1' + description: Concentration of manganese in the sample + title: manganese + examples: + - value: 24.7 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - manganese + is_a: attribute + range: string + multivalued: false + max_occup: + name: max_occup + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The maximum amount of people allowed in the indoor environment + title: maximum occupancy + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - maximum occupancy + is_a: core field + slot_uri: MIXS:0000229 + multivalued: false + range: string + mean_frict_vel: + name: mean_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean friction velocity + title: mean friction velocity + examples: + - value: 0.5 meter per second + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean friction velocity + is_a: core field + slot_uri: MIXS:0000498 + multivalued: false + range: string + mean_peak_frict_vel: + name: mean_peak_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean peak friction velocity + title: mean peak friction velocity + examples: + - value: 1 meter per second + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean peak friction velocity + is_a: core field + slot_uri: MIXS:0000502 + multivalued: false + range: string + mech_struc: + name: mech_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'mechanical structure: a moving structure' + title: mechanical structure + examples: + - value: elevator + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mechanical structure + is_a: core field + slot_uri: MIXS:0000815 + multivalued: false + range: mech_struc_enum + mechanical_damage: + name: mechanical_damage + annotations: + expected_value: + tag: expected_value + value: damage type;body site + occurrence: + tag: occurrence + value: m + description: Information about any mechanical damage exerted on the plant; can include multiple damages and sites + title: mechanical damage + examples: + - value: pruning;bark + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mechanical damage + is_a: core field + string_serialization: '{text};{text}' + slot_uri: MIXS:0001052 + multivalued: false + range: string + methane: + name: methane + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per billion, parts per million + occurrence: + tag: occurrence + value: '1' + description: Methane (gas) amount or concentration at the time of sampling + title: methane + examples: + - value: 1800 parts per billion + from_schema: https://example.com/nmdc_submission_schema + aliases: + - methane + is_a: core field + slot_uri: MIXS:0000101 + multivalued: false + range: string + micro_biomass_c_meth: + name: micro_biomass_c_meth + description: Reference or method used in determining microbial biomass carbon + title: microbial biomass carbon method + todos: + - How should we separate values? | or ;? lets be consistent + comments: + - required if "microbial_biomass_c" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:micro_biomass_meth + rank: 11 + string_serialization: '{PMID}|{DOI}|{URL}' + slot_group: MIxS Inspired + recommended: true + micro_biomass_meth: + name: micro_biomass_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining microbial biomass + title: microbial biomass method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - microbial biomass method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000339 + multivalued: false + range: string + micro_biomass_n_meth: + name: micro_biomass_n_meth + description: Reference or method used in determining microbial biomass nitrogen + title: microbial biomass nitrogen method + comments: + - required if "microbial_biomass_n" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:micro_biomass_meth + rank: 13 + string_serialization: '{PMID}|{DOI}|{URL}' + slot_group: MIxS Inspired + microbial_biomass: + name: microbial_biomass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram per kilogram soil + occurrence: + tag: occurrence + value: '1' + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. If you keep this, you would need to have correction factors used for conversion to the final units + title: microbial biomass + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - microbial biomass + is_a: core field + slot_uri: MIXS:0000650 + multivalued: false + range: string + microbial_biomass_c: + name: microbial_biomass_c + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass carbon + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug C/g dry soil + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:microbial_biomass + rank: 10 + string_serialization: '{float} {unit}' + slot_group: MIxS Inspired + microbial_biomass_n: + name: microbial_biomass_n + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass nitrogen + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug N/g dry soil + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:microbial_biomass + rank: 12 + string_serialization: '{float} {unit}' + slot_group: MIxS Inspired + mineral_nutr_regm: + name: mineral_nutr_regm + annotations: + expected_value: + tag: expected_value + value: mineral nutrient name;mineral nutrient amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens + title: mineral nutrient regimen + examples: + - value: potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mineral nutrient regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000570 + multivalued: false + range: string + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://example.com/nmdc_submission_schema + aliases: + - miscellaneous parameter + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + range: string + n_alkanes: + name: n_alkanes + annotations: + expected_value: + tag: expected_value + value: n-alkane name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of n-alkanes; can include multiple n-alkanes + title: n-alkanes + examples: + - value: n-hexadecane;100 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - n-alkanes + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000503 + multivalued: false + range: string + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - nitrate + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + range: string + nitrate_nitrogen: + name: nitrate_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate nitrogen in the sample + title: nitrate_nitrogen + comments: + - often below some specified limit of detection + examples: + - value: 0.29 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - nitrate_nitrogen + - NO3-N + is_a: attribute + range: string + multivalued: false + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - nitrite + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + range: string + nitrite_nitrogen: + name: nitrite_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite nitrogen in the sample + title: nitrite_nitrogen + examples: + - value: 1.2 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - nitrite_nitrogen + - NO2-N + is_a: attribute + range: string + multivalued: false + nitro: + name: nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrogen (total) + title: nitrogen + examples: + - value: 4.2 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - nitrogen + is_a: core field + slot_uri: MIXS:0000504 + multivalued: false + range: string + non_microb_biomass: + name: non_microb_biomass + description: Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ; + title: non-microbial biomass + examples: + - value: insect 0.23 ug; plant 1g + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:biomass|microbial_biomass + rank: 8 + string_serialization: '{text};{float} {unit}' + slot_group: MIxS Inspired + non_microb_biomass_method: + name: non_microb_biomass_method + description: Reference or method used in determining biomass + title: non-microbial biomass method + comments: + - required if "non-microbial biomass" is provided + examples: + - value: https://doi.org/10.1038/s41467-021-26181-3 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:microbial_biomass + rank: 9 + string_serialization: '{PMID}|{DOI}|{URL}' + slot_group: MIxS Inspired + non_min_nutr_regm: + name: non_min_nutr_regm + annotations: + expected_value: + tag: expected_value + value: non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens + title: non-mineral nutrient regimen + examples: + - value: carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - non-mineral nutrient regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000571 + multivalued: false + range: string + number_pets: + name: number_pets + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of pets residing in the sampled space + title: number of pets + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - number of pets + is_a: core field + slot_uri: MIXS:0000231 + multivalued: false + range: string + number_plants: + name: number_plants + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of plant(s) in the sampling space + title: number of houseplants + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - number of houseplants + is_a: core field + slot_uri: MIXS:0000230 + multivalued: false + range: string + number_resident: + name: number_resident + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of individuals currently occupying in the sampling location + title: number of residents + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - number of residents + is_a: core field + slot_uri: MIXS:0000232 + multivalued: false + range: string + occup_density_samp: + name: occup_density_samp + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Average number of occupants at time of sampling per square footage + title: occupant density at sampling + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - occupant density at sampling + is_a: core field + slot_uri: MIXS:0000217 + multivalued: false + range: string + occup_document: + name: occup_document + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of documentation of occupancy + title: occupancy documentation + examples: + - value: estimate + from_schema: https://example.com/nmdc_submission_schema + aliases: + - occupancy documentation + is_a: core field + slot_uri: MIXS:0000816 + multivalued: false + range: occup_document_enum + occup_samp: + name: occup_samp + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Number of occupants present at time of sample within the given space + title: occupancy at sampling + examples: + - value: '10' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - occupancy at sampling + is_a: core field + slot_uri: MIXS:0000772 + multivalued: false + range: string + org_carb: + name: org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic carbon + title: organic carbon + examples: + - value: 1.5 microgram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organic carbon + is_a: core field + slot_uri: MIXS:0000508 + multivalued: false + range: string + org_count_qpcr_info: + name: org_count_qpcr_info + annotations: + expected_value: + tag: expected_value + value: gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles + preferred_unit: + tag: preferred_unit + value: number of cells per gram (or ml or cm^2) + occurrence: + tag: occurrence + value: '1' + description: 'If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)' + title: organism count qPCR information + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organism count qPCR information + is_a: core field + string_serialization: '{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles' + slot_uri: MIXS:0000099 + multivalued: false + range: string + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organic matter + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + range: string + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organic nitrogen + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + range: string + org_nitro_method: + name: org_nitro_method + description: Method used for obtaining organic nitrogen + title: organic nitrogen method + comments: + - required if "org_nitro" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(85)90144-0 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:org_nitro|tot_nitro_cont_meth + rank: 14 + string_serialization: '{PMID}|{DOI}|{URL}' + slot_group: MIxS Inspired + org_particles: + name: org_particles + annotations: + expected_value: + tag: expected_value + value: particle name;measurement value + preferred_unit: + tag: preferred_unit + value: gram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc. + title: organic particles + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organic particles + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000665 + multivalued: false + range: string + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://example.com/nmdc_submission_schema + aliases: + - organism count + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + range: string + other_treatment: + name: other_treatment + description: Other treatments applied to your samples that are not applicable to the provided fields + title: other treatments + comments: + - This is an open text field to provide any treatments that cannot be captured in the provided slots. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:additional_info + rank: 15 + string_serialization: '{text}' + slot_group: MIxS Inspired + recommended: true + owc_tvdss: + name: owc_tvdss + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Depth of the original oil water contact (OWC) zone (average) (m TVDSS) + title: oil water contact depth + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - oil water contact depth + is_a: core field + slot_uri: MIXS:0000405 + multivalued: false + range: string + oxy_stat_samp: + name: oxy_stat_samp + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Oxygenation status of sample + title: oxygenation status of sample + examples: + - value: aerobic + from_schema: https://example.com/nmdc_submission_schema + aliases: + - oxygenation status of sample + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + range: OxyStatSampEnum + oxygen: + name: oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Oxygen (gas) amount or concentration at the time of sampling + title: oxygen + examples: + - value: 600 parts per million + from_schema: https://example.com/nmdc_submission_schema + aliases: + - oxygen + is_a: core field + slot_uri: MIXS:0000104 + multivalued: false + range: string + part_org_carb: + name: part_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic carbon + title: particulate organic carbon + examples: + - value: 1.92 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - particulate organic carbon + is_a: core field + slot_uri: MIXS:0000515 + multivalued: false + range: string + part_org_nitro: + name: part_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic nitrogen + title: particulate organic nitrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - particulate organic nitrogen + is_a: core field + slot_uri: MIXS:0000719 + multivalued: false + range: string + particle_class: + name: particle_class + annotations: + expected_value: + tag: expected_value + value: particle name;measurement value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: m + description: Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values + title: particle classification + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - particle classification + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000206 + multivalued: false + range: string + permeability: + name: permeability + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: mD + occurrence: + tag: occurrence + value: '1' + description: 'Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))' + title: permeability + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - permeability + is_a: core field + string_serialization: '{integer} - {integer} {unit}' + slot_uri: MIXS:0000404 + multivalued: false + range: string + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - perturbation + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + range: string + pesticide_regm: + name: pesticide_regm + annotations: + expected_value: + tag: expected_value + value: pesticide name;pesticide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens + title: pesticide regimen + examples: + - value: pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pesticide regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000573 + multivalued: false + range: string + petroleum_hydrocarb: + name: petroleum_hydrocarb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of petroleum hydrocarbon + title: petroleum hydrocarbon + examples: + - value: 0.05 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - petroleum hydrocarbon + is_a: core field + slot_uri: MIXS:0000516 + multivalued: false + range: string + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + examples: + - value: '7.2' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pH + is_a: core field + slot_uri: MIXS:0001001 + multivalued: false + range: double + ph_meth: + name: ph_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining ph + title: pH method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pH method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + range: string + ph_regm: + name: ph_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen + title: pH regimen + examples: + - value: 7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pH regimen + is_a: core field + string_serialization: '{float};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001056 + multivalued: false + range: string + phaeopigments: + name: phaeopigments + annotations: + expected_value: + tag: expected_value + value: phaeopigment name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of phaeopigments; can include multiple phaeopigments + title: phaeopigments + examples: + - value: 2.5 milligram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - phaeopigments + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000180 + multivalued: false + range: string + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - phosphate + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + range: string + phosplipid_fatt_acid: + name: phosplipid_fatt_acid + annotations: + expected_value: + tag: expected_value + value: phospholipid fatty acid name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per gram, mole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of phospholipid fatty acids; can include multiple values + title: phospholipid fatty acid + examples: + - value: 2.98 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - phospholipid fatty acid + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000181 + multivalued: false + range: string + photon_flux: + name: photon_flux + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: number of photons per second per unit area + occurrence: + tag: occurrence + value: '1' + description: Measurement of photon flux + title: photon flux + examples: + - value: 3.926 micromole photons per second per square meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - photon flux + is_a: core field + slot_uri: MIXS:0000725 + multivalued: false + range: string + plant_growth_med: + name: plant_growth_med + annotations: + expected_value: + tag: expected_value + value: EO or enumeration + occurrence: + tag: occurrence + value: '1' + description: Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary + title: plant growth medium + examples: + - value: hydroponic plant culture media [EO:0007067] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - plant growth medium + is_a: core field + slot_uri: MIXS:0001057 + multivalued: false + range: string + plant_product: + name: plant_product + annotations: + expected_value: + tag: expected_value + value: product name + occurrence: + tag: occurrence + value: '1' + description: Substance produced by the plant, where the sample was obtained from + title: plant product + examples: + - value: xylem sap [PO:0025539] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - plant product + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001058 + multivalued: false + range: string + plant_sex: + name: plant_sex + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite. + title: plant sex + examples: + - value: Hermaphroditic + from_schema: https://example.com/nmdc_submission_schema + aliases: + - plant sex + is_a: core field + slot_uri: MIXS:0001059 + multivalued: false + range: plant_sex_enum + plant_struc: + name: plant_struc + annotations: + expected_value: + tag: expected_value + value: PO + occurrence: + tag: occurrence + value: '1' + description: Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here. + title: plant structure + examples: + - value: epidermis [PO:0005679] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - plant structure + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0001060 + multivalued: false + range: string + pollutants: + name: pollutants + annotations: + expected_value: + tag: expected_value + value: pollutant name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter, microgram per cubic meter + occurrence: + tag: occurrence + value: m + description: Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant + title: pollutants + examples: + - value: lead;0.15 microgram per cubic meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pollutants + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000107 + multivalued: false + range: string + porosity: + name: porosity + annotations: + expected_value: + tag: expected_value + value: measurement value or range + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Porosity of deposited sediment is volume of voids divided by the total volume of sample + title: porosity + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - porosity + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000211 + multivalued: false + range: string + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - potassium + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + range: string + pour_point: + name: pour_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: 'Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)' + title: pour point + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pour point + is_a: core field + slot_uri: MIXS:0000127 + multivalued: false + range: string + pre_treatment: + name: pre_treatment + annotations: + expected_value: + tag: expected_value + value: pre-treatment type + occurrence: + tag: occurrence + value: '1' + description: The process of pre-treatment removes materials that can be easily collected from the raw wastewater + title: pre-treatment + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pre-treatment + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000348 + multivalued: false + range: string + pres_animal_insect: + name: pres_animal_insect + annotations: + expected_value: + tag: expected_value + value: enumeration;count + occurrence: + tag: occurrence + value: '1' + description: The type and number of animals or insects present in the sampling space. + title: presence of pets, animals, or insects + examples: + - value: cat;5 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - presence of pets, animals, or insects + is_a: core field + slot_uri: MIXS:0000819 + multivalued: false + range: string + pattern: ^(cat|dog|rodent|snake|other);\d+$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://example.com/nmdc_submission_schema + aliases: + - pressure + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + range: string + prev_land_use_meth: + name: prev_land_use_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining previous land use and dates + title: history/previous land use method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/previous land use method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000316 + multivalued: false + range: string + previous_land_use: + name: previous_land_use + annotations: + expected_value: + tag: expected_value + value: land use name;date + occurrence: + tag: occurrence + value: '1' + description: Previous land use and dates + title: history/previous land use + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/previous land use + is_a: core field + string_serialization: '{text};{timestamp}' + slot_uri: MIXS:0000315 + multivalued: false + range: string + primary_prod: + name: primary_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day, gram per square meter per day + occurrence: + tag: occurrence + value: '1' + description: Measurement of primary production, generally measured as isotope uptake + title: primary production + examples: + - value: 100 milligram per cubic meter per day + from_schema: https://example.com/nmdc_submission_schema + aliases: + - primary production + is_a: core field + slot_uri: MIXS:0000728 + multivalued: false + range: string + primary_treatment: + name: primary_treatment + annotations: + expected_value: + tag: expected_value + value: primary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed + title: primary treatment + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - primary treatment + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000349 + multivalued: false + range: string + prod_rate: + name: prod_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Oil and/or gas production rates per well (e.g. 524 m3 / day) + title: production rate + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - production rate + is_a: core field + slot_uri: MIXS:0000452 + multivalued: false + range: string + prod_start_date: + name: prod_start_date + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: Date of field's first production + title: production start date + examples: + - value: '2018-05-11' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - production start date + is_a: core field + slot_uri: MIXS:0001008 + multivalued: false + range: string + profile_position: + name: profile_position + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas + title: profile position + examples: + - value: summit + from_schema: https://example.com/nmdc_submission_schema + aliases: + - profile position + is_a: core field + slot_uri: MIXS:0001084 + multivalued: false + range: profile_position_enum + project_id: + name: project_id + description: Proposal IDs or names associated with dataset + title: project ID + from_schema: https://example.com/nmdc_submission_schema + rank: 1 + string_serialization: '{text}' + slot_group: EMSL + recommended: true + proposal_dna: + name: proposal_dna + title: DNA proposal ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '504000' + from_schema: https://example.com/nmdc_submission_schema + rank: 19 + string_serialization: '{text}' + slot_group: JGI-Metagenomics + recommended: true + proposal_rna: + name: proposal_rna + title: RNA proposal ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '504000' + from_schema: https://example.com/nmdc_submission_schema + rank: 19 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + quad_pos: + name: quad_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The quadrant position of the sampling room within the building + title: quadrant position + examples: + - value: West side + from_schema: https://example.com/nmdc_submission_schema + aliases: + - quadrant position + is_a: core field + slot_uri: MIXS:0000820 + multivalued: false + range: quad_pos_enum + radiation_regm: + name: radiation_regm + annotations: + expected_value: + tag: expected_value + value: radiation type name;radiation amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: rad, gray + occurrence: + tag: occurrence + value: m + description: Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens + title: radiation regimen + examples: + - value: gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - radiation regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000575 + multivalued: false + range: string + rainfall_regm: + name: rainfall_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: millimeter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: rainfall regimen + examples: + - value: 15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rainfall regimen + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000576 + multivalued: false + range: string + reactor_type: + name: reactor_type + annotations: + expected_value: + tag: expected_value + value: reactor type name + occurrence: + tag: occurrence + value: '1' + description: Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage + title: reactor type + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - reactor type + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000350 + multivalued: false + range: string + redox_potential: + name: redox_potential + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millivolt + occurrence: + tag: occurrence + value: '1' + description: Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential + title: redox potential + examples: + - value: 300 millivolt + from_schema: https://example.com/nmdc_submission_schema + aliases: + - redox potential + is_a: core field + slot_uri: MIXS:0000182 + multivalued: false + range: string + rel_air_humidity: + name: rel_air_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Partial vapor and air pressure, density of the vapor and air, or by the actual mass of the vapor and air + title: relative air humidity + examples: + - value: 80% + from_schema: https://example.com/nmdc_submission_schema + aliases: + - relative air humidity + is_a: core field + slot_uri: MIXS:0000121 + multivalued: false + range: string + rel_humidity_out: + name: rel_humidity_out + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram of air, kilogram of air + occurrence: + tag: occurrence + value: '1' + description: The recorded outside relative humidity value at the time of sampling + title: outside relative humidity + examples: + - value: 12 per kilogram of air + from_schema: https://example.com/nmdc_submission_schema + aliases: + - outside relative humidity + is_a: core field + slot_uri: MIXS:0000188 + multivalued: false + range: string + rel_samp_loc: + name: rel_samp_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The sampling location within the train car + title: relative sampling location + examples: + - value: center of car + from_schema: https://example.com/nmdc_submission_schema + aliases: + - relative sampling location + is_a: core field + slot_uri: MIXS:0000821 + multivalued: false + range: rel_samp_loc_enum + replicate_number: + name: replicate_number + description: If sending biological replicates, indicate the rep number here. + title: replicate number + comments: + - This will guide staff in ensuring your samples are block & randomized correctly + from_schema: https://example.com/nmdc_submission_schema + rank: 6 + string_serialization: '{integer}' + slot_group: EMSL + recommended: true + reservoir: + name: reservoir + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the reservoir (e.g. Carapebus) + title: reservoir name + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - reservoir name + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000303 + multivalued: false + range: string + resins_pc: + name: resins_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: resins wt% + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - resins wt% + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000134 + multivalued: false + range: string + rna_absorb1: + name: rna_absorb1 + description: 260/280 measurement of RNA sample purity + title: RNA absorbance 260/280 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://example.com/nmdc_submission_schema + rank: 7 + string_serialization: '{float}' + slot_group: JGI-Metatranscriptomics + range: float + recommended: true + rna_absorb2: + name: rna_absorb2 + description: 260/230 measurement of RNA sample purity + title: RNA absorbance 260/230 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://example.com/nmdc_submission_schema + rank: 8 + string_serialization: '{float}' + slot_group: JGI-Metatranscriptomics + range: float + recommended: true + rna_concentration: + name: rna_concentration + title: RNA concentration in ng/ul + comments: + - Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000. + examples: + - value: '100' + from_schema: https://example.com/nmdc_submission_schema + rank: 5 + string_serialization: '{float}' + slot_group: JGI-Metatranscriptomics + range: float + recommended: true + minimum_value: 0 + maximum_value: 1000 + rna_cont_type: + name: rna_cont_type + description: Tube or plate (96-well) + title: RNA container type + examples: + - value: plate + from_schema: https://example.com/nmdc_submission_schema + rank: 10 + slot_group: JGI-Metatranscriptomics + range: JgiContTypeEnum + recommended: true + rna_cont_well: + name: rna_cont_well + title: RNA plate position + comments: + - Required when 'plate' is selected for container type. + - Leave blank if the sample will be shipped in a tube. + - JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation. + - For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8). + examples: + - value: B2 + from_schema: https://example.com/nmdc_submission_schema + rank: 11 + string_serialization: '{96 well plate pos}' + slot_group: JGI-Metatranscriptomics + recommended: true + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + rna_container_id: + name: rna_container_id + title: RNA container label + comments: + - Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label. + examples: + - value: Pond_MT_041618 + from_schema: https://example.com/nmdc_submission_schema + rank: 9 + string_serialization: '{text < 20 characters}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_isolate_meth: + name: rna_isolate_meth + description: Describe the method/protocol/kit used to extract DNA/RNA. + title: RNA isolation method + examples: + - value: phenol/chloroform extraction + from_schema: https://example.com/nmdc_submission_schema + rank: 16 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_project_contact: + name: rna_project_contact + title: RNA seq project contact + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: John Jones + from_schema: https://example.com/nmdc_submission_schema + rank: 18 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_samp_id: + name: rna_samp_id + title: RNA sample ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '187654' + from_schema: https://example.com/nmdc_submission_schema + rank: 3 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_sample_format: + name: rna_sample_format + description: Solution in which the RNA sample has been suspended + title: RNA sample format + examples: + - value: Water + from_schema: https://example.com/nmdc_submission_schema + rank: 12 + slot_group: JGI-Metatranscriptomics + range: rna_sample_format_enum + recommended: true + rna_sample_name: + name: rna_sample_name + description: Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only. + title: RNA sample name + examples: + - value: JGI_pond_041618 + from_schema: https://example.com/nmdc_submission_schema + rank: 4 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + minimum_value: 0 + maximum_value: 2000 + rna_seq_project: + name: rna_seq_project + title: RNA seq project ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '1191234' + from_schema: https://example.com/nmdc_submission_schema + rank: 1 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_seq_project_name: + name: rna_seq_project_name + title: RNA seq project name + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: JGI Pond metatranscriptomics + from_schema: https://example.com/nmdc_submission_schema + rank: 2 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_seq_project_pi: + name: rna_seq_project_pi + title: RNA seq project PI + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: Jane Johnson + from_schema: https://example.com/nmdc_submission_schema + rank: 17 + string_serialization: '{text}' + slot_group: JGI-Metatranscriptomics + recommended: true + rna_volume: + name: rna_volume + title: RNA volume in ul + comments: + - Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only. + examples: + - value: '25' + from_schema: https://example.com/nmdc_submission_schema + rank: 6 + string_serialization: '{float}' + slot_group: JGI-Metatranscriptomics + range: float + recommended: true + minimum_value: 25 + maximum_value: 1000 + room_air_exch_rate: + name: room_air_exch_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: liter per hour + occurrence: + tag: occurrence + value: '1' + description: The rate at which outside air replaces indoor air in a given space + title: room air exchange rate + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room air exchange rate + is_a: core field + slot_uri: MIXS:0000169 + multivalued: false + range: string + room_architec_elem: + name: room_architec_elem + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: The unique details and component parts that, together, form the architecture of a distinguisahable space within a built structure + title: room architectural elements + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room architectural elements + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000233 + multivalued: false + range: string + room_condt: + name: room_condt + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The condition of the room at the time of sampling + title: room condition + examples: + - value: new + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room condition + is_a: core field + slot_uri: MIXS:0000822 + multivalued: false + range: room_condt_enum + room_connected: + name: room_connected + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: List of rooms connected to the sampling room by a doorway + title: rooms connected by a doorway + examples: + - value: office + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooms connected by a doorway + is_a: core field + slot_uri: MIXS:0000826 + multivalued: false + range: room_connected_enum + room_count: + name: room_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The total count of rooms in the built structure including all room types + title: room count + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room count + is_a: core field + slot_uri: MIXS:0000234 + multivalued: false + range: string + room_dim: + name: room_dim + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: The length, width and height of sampling room + title: room dimensions + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room dimensions + is_a: core field + string_serialization: '{integer} {unit} x {integer} {unit} x {integer} {unit}' + slot_uri: MIXS:0000192 + multivalued: false + range: string + room_door_dist: + name: room_door_dist + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Distance between doors (meters) in the hallway between the sampling room and adjacent rooms + title: room door distance + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room door distance + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000193 + multivalued: false + range: string + room_door_share: + name: room_door_share + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) sharing a door with the sampling room + title: rooms that share a door with sampling room + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooms that share a door with sampling room + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000242 + multivalued: false + range: string + room_hallway: + name: room_hallway + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) located in the same hallway as sampling room + title: rooms that are on the same hallway + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooms that are on the same hallway + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000238 + multivalued: false + range: string + room_loc: + name: room_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The position of the room within the building + title: room location in building + examples: + - value: interior room + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room location in building + is_a: core field + slot_uri: MIXS:0000823 + multivalued: false + range: room_loc_enum + room_moist_dam_hist: + name: room_moist_dam_hist + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The history of moisture damage or mold in the past 12 months. Number of events of moisture damage or mold observed + title: room moisture damage or mold history + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room moisture damage or mold history + is_a: core field + slot_uri: MIXS:0000235 + multivalued: false + range: integer + room_net_area: + name: room_net_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square feet, square meter + occurrence: + tag: occurrence + value: '1' + description: The net floor area of sampling room. Net area excludes wall thicknesses + title: room net area + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room net area + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000194 + multivalued: false + range: string + room_occup: + name: room_occup + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Count of room occupancy at time of sampling + title: room occupancy + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room occupancy + is_a: core field + slot_uri: MIXS:0000236 + multivalued: false + range: string + room_samp_pos: + name: room_samp_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The horizontal sampling position in the room relative to architectural elements + title: room sampling position + examples: + - value: south corner + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room sampling position + is_a: core field + slot_uri: MIXS:0000824 + multivalued: false + range: room_samp_pos_enum + room_type: + name: room_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The main purpose or activity of the sampling room. A room is any distinguishable space within a structure + title: room type + examples: + - value: bathroom + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room type + is_a: core field + slot_uri: MIXS:0000825 + multivalued: false + range: room_type_enum + room_vol: + name: room_vol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic feet, cubic meter + occurrence: + tag: occurrence + value: '1' + description: Volume of sampling room + title: room volume + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room volume + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000195 + multivalued: false + range: string + room_wall_share: + name: room_wall_share + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) sharing a wall with the sampling room + title: rooms that share a wall with sampling room + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooms that share a wall with sampling room + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000243 + multivalued: false + range: string + room_window_count: + name: room_window_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Number of windows in the room + title: room window count + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - room window count + is_a: core field + slot_uri: MIXS:0000237 + multivalued: false + range: integer + root_cond: + name: root_cond + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container. + title: rooting conditions + examples: + - value: http://himedialabs.com/TD/PT158.pdf + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting conditions + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001061 + multivalued: false + range: string + root_med_carbon: + name: root_med_carbon + annotations: + expected_value: + tag: expected_value + value: carbon source name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Source of organic carbon in the culture rooting medium; e.g. sucrose. + title: rooting medium carbon + examples: + - value: sucrose + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium carbon + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000577 + multivalued: false + range: string + root_med_macronutr: + name: root_med_macronutr + annotations: + expected_value: + tag: expected_value + value: macronutrient name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L). + title: rooting medium macronutrients + examples: + - value: KH2PO4;170¬†milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium macronutrients + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000578 + multivalued: false + range: string + root_med_micronutr: + name: root_med_micronutr + annotations: + expected_value: + tag: expected_value + value: micronutrient name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L). + title: rooting medium micronutrients + examples: + - value: H3BO3;6.2¬†milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium micronutrients + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000579 + multivalued: false + range: string + root_med_ph: + name: root_med_ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the culture rooting medium; e.g. 5.5. + title: rooting medium pH + examples: + - value: '7.5' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium pH + is_a: core field + slot_uri: MIXS:0001062 + multivalued: false + range: string + root_med_regl: + name: root_med_regl + annotations: + expected_value: + tag: expected_value + value: regulator name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA. + title: rooting medium regulators + examples: + - value: abscisic acid;0.75 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium regulators + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000581 + multivalued: false + range: string + root_med_solid: + name: root_med_solid + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Specification of the solidifying agent in the culture rooting medium; e.g. agar. + title: rooting medium solidifier + examples: + - value: agar + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium solidifier + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001063 + multivalued: false + range: string + root_med_suppl: + name: root_med_suppl + annotations: + expected_value: + tag: expected_value + value: supplement name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L). + title: rooting medium organic supplements + examples: + - value: nicotinic acid;0.5 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - rooting medium organic supplements + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000580 + multivalued: false + range: string + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://example.com/nmdc_submission_schema + aliases: + - salinity + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + range: string + salinity_meth: + name: salinity_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining salinity + title: salinity method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - salinity method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000341 + multivalued: false + range: string + salt_regm: + name: salt_regm + annotations: + expected_value: + tag: expected_value + value: salt name;salt amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens + title: salt regimen + examples: + - value: NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - salt regimen + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000582 + multivalued: false + range: string + samp_capt_status: + name: samp_capt_status + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Reason for the sample + title: sample capture status + examples: + - value: farm sample + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample capture status + is_a: core field + slot_uri: MIXS:0000860 + multivalued: false + range: samp_capt_status_enum + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample collection device + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + range: string + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + examples: + - value: swabbing + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample collection method + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + range: string + samp_collect_point: + name: samp_collect_point + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If "other" is specified, please propose entry in "additional info" field + title: sample collection point + examples: + - value: well + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample collection point + is_a: core field + slot_uri: MIXS:0001015 + multivalued: false + range: samp_collect_point_enum + samp_dis_stage: + name: samp_dis_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen. + title: sample disease stage + examples: + - value: infection + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample disease stage + is_a: core field + slot_uri: MIXS:0000249 + multivalued: false + range: samp_dis_stage_enum + samp_floor: + name: samp_floor + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The floor of the building, where the sampling room is located + title: sampling floor + examples: + - value: 4th floor + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sampling floor + is_a: core field + slot_uri: MIXS:0000828 + multivalued: false + range: samp_floor_enum + samp_loc_corr_rate: + name: samp_loc_corr_rate + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: millimeter per year + occurrence: + tag: occurrence + value: '1' + description: Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays + title: corrosion rate at sample location + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - corrosion rate at sample location + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000136 + multivalued: false + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater, storing samples in ethanol + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample material processing + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + range: string + samp_md: + name: samp_md + annotations: + expected_value: + tag: expected_value + value: measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If "other" is specified, please propose entry in "additional info" field + title: sample measured depth + examples: + - value: 1534 meter;MSL + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample measured depth + is_a: core field + slot_uri: MIXS:0000413 + multivalued: false + range: string + samp_name: + name: samp_name + annotations: + expected_value: + tag: expected_value + value: text + description: A local identifier or name that for the material sample used for extracting nucleic acids, and subsequent sequencing. It can refer either to the original material collected or to any derived sub-samples. It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible. INSDC requires every sample name from a single Submitter to be unique. Use of a globally unique identifier for the field source_mat_id is recommended in addition to sample_name. + title: sample name + examples: + - value: ISDsoil1 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample name + is_a: investigation field + string_serialization: '{text}' + slot_uri: MIXS:0001107 + multivalued: false + range: string + samp_preserv: + name: samp_preserv + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: milliliter + occurrence: + tag: occurrence + value: '1' + description: Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml) + title: preservative added to sample + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - preservative added to sample + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000463 + multivalued: false + range: string + samp_room_id: + name: samp_room_id + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Sampling room number. This ID should be consistent with the designations on the building floor plans + title: sampling room ID or name + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sampling room ID or name + is_a: core field + slot_uri: MIXS:0000244 + multivalued: false + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + examples: + - value: 5 liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - amount or size of sample collected + is_a: nucleic acid sequence source field + slot_uri: MIXS:0000001 + multivalued: false + range: string + samp_sort_meth: + name: samp_sort_meth + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: m + description: Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor. + title: sample size sorting method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample size sorting method + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000216 + multivalued: false + range: string + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample storage duration + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample storage location + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which sample was stored, e.g. -80 degree Celsius + title: sample storage temperature + examples: + - value: -80 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample storage temperature + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + range: string + samp_subtype: + name: samp_subtype + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Name of sample sub-type. For example if "sample type" is "Produced Water" then subtype could be "Oil Phase" or "Water Phase". If "other" is specified, please propose entry in "additional info" field + title: sample subtype + examples: + - value: biofilm + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample subtype + is_a: core field + slot_uri: MIXS:0000999 + multivalued: false + range: samp_subtype_enum + samp_time_out: + name: samp_time_out + annotations: + expected_value: + tag: expected_value + value: time + preferred_unit: + tag: preferred_unit + value: hour + occurrence: + tag: occurrence + value: '1' + description: The recent and long term history of outside sampling + title: sampling time outside + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sampling time outside + is_a: core field + slot_uri: MIXS:0000196 + multivalued: false + range: string + samp_transport_cond: + name: samp_transport_cond + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: days;degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C) + title: sample transport conditions + examples: + - value: 5 days;-20 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample transport conditions + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000410 + multivalued: false + range: string + samp_tvdss: + name: samp_tvdss + annotations: + expected_value: + tag: expected_value + value: measurement value or measurement value range + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m + title: sample true vertical depth subsea + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample true vertical depth subsea + is_a: core field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000409 + multivalued: false + range: string + samp_type: + name: samp_type + annotations: + expected_value: + tag: expected_value + value: GENEPIO:0001246 + occurrence: + tag: occurrence + value: '1' + description: The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246). + title: sample type + examples: + - value: built environment sample [GENEPIO:0001248] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample type + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000998 + multivalued: false + range: string + samp_weather: + name: samp_weather + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The weather on the sampling day + title: sampling day weather + examples: + - value: foggy + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sampling day weather + is_a: core field + slot_uri: MIXS:0000827 + multivalued: false + range: samp_weather_enum + samp_well_name: + name: samp_well_name + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the well (e.g. BXA1123) where sample was taken + title: sample well name + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sample well name + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000296 + multivalued: false + range: string + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://example.com/nmdc_submission_schema + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + slot_group: Sample ID + range: string + recommended: true + sample_shipped: + name: sample_shipped + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL. + title: sample shipped amount + comments: + - This field is only required when completing metadata for samples being submitted to EMSL for analyses. + examples: + - value: 15 g + - value: 100 uL + - value: 5 mL + from_schema: https://example.com/nmdc_submission_schema + rank: 3 + string_serialization: '{float} {unit}' + slot_group: EMSL + recommended: true + sample_type: + name: sample_type + description: Type of sample being submitted + title: sample type + comments: + - This can vary from 'environmental package' if the sample is an extraction. + examples: + - value: water extracted soil + from_schema: https://example.com/nmdc_submission_schema + rank: 2 + slot_group: EMSL + range: sample_type_enum + recommended: true + saturates_pc: + name: saturates_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: saturates wt% + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - saturates wt% + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000131 + multivalued: false + range: string + season: + name: season + annotations: + expected_value: + tag: expected_value + value: NCIT:C94729 + occurrence: + tag: occurrence + value: '1' + description: The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729). + title: season + examples: + - value: autumn [NCIT:C94733] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - season + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000829 + multivalued: false + range: string + season_environment: + name: season_environment + annotations: + expected_value: + tag: expected_value + value: seasonal environment name;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment + title: seasonal environment + examples: + - value: rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - seasonal environment + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001068 + multivalued: false + range: string + season_precpt: + name: season_precpt + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter + occurrence: + tag: occurrence + value: '1' + description: The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps. + title: mean seasonal precipitation + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean seasonal precipitation + is_a: core field + slot_uri: MIXS:0000645 + multivalued: false + range: string + season_temp: + name: season_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Mean seasonal temperature + title: mean seasonal temperature + examples: + - value: 18 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - mean seasonal temperature + is_a: core field + slot_uri: MIXS:0000643 + multivalued: false + range: string + season_use: + name: season_use + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The seasons the space is occupied + title: seasonal use + examples: + - value: Winter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - seasonal use + is_a: core field + slot_uri: MIXS:0000830 + multivalued: false + range: season_use_enum + secondary_treatment: + name: secondary_treatment + annotations: + expected_value: + tag: expected_value + value: secondary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process for substantially degrading the biological content of the sewage + title: secondary treatment + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - secondary treatment + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000351 + multivalued: false + range: string + sediment_type: + name: sediment_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Information about the sediment type based on major constituents + title: sediment type + examples: + - value: biogenous + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sediment type + is_a: core field + slot_uri: MIXS:0001078 + multivalued: false + range: sediment_type_enum + sewage_type: + name: sewage_type + annotations: + expected_value: + tag: expected_value + value: sewage type name + occurrence: + tag: occurrence + value: '1' + description: Type of wastewater treatment plant as municipial or industrial + title: sewage type + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sewage type + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000215 + multivalued: false + range: string + shad_dev_water_mold: + name: shad_dev_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the shading device + title: shading device signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://example.com/nmdc_submission_schema + aliases: + - shading device signs of water/mold + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000834 + multivalued: false + range: string + shading_device_cond: + name: shading_device_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the shading device at the time of sampling + title: shading device condition + examples: + - value: new + from_schema: https://example.com/nmdc_submission_schema + aliases: + - shading device condition + is_a: core field + slot_uri: MIXS:0000831 + multivalued: false + range: shading_device_cond_enum + shading_device_loc: + name: shading_device_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The location of the shading device in relation to the built structure + title: shading device location + examples: + - value: exterior + from_schema: https://example.com/nmdc_submission_schema + aliases: + - shading device location + is_a: core field + string_serialization: '[exterior|interior]' + slot_uri: MIXS:0000832 + multivalued: false + range: string + shading_device_mat: + name: shading_device_mat + annotations: + expected_value: + tag: expected_value + value: material name + occurrence: + tag: occurrence + value: '1' + description: The material the shading device is composed of + title: shading device material + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - shading device material + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000245 + multivalued: false + range: string + shading_device_type: + name: shading_device_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of shading device + title: shading device type + examples: + - value: slatted aluminum awning + from_schema: https://example.com/nmdc_submission_schema + aliases: + - shading device type + is_a: core field + slot_uri: MIXS:0000835 + multivalued: false + range: shading_device_type_enum + sieving: + name: sieving + annotations: + expected_value: + tag: expected_value + value: design name and/or size;amount + occurrence: + tag: occurrence + value: '1' + description: Collection design of pooled samples and/or sieve size and amount of sample sieved + title: composite design/sieving + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - composite design/sieving + is_a: core field + string_serialization: '{{text}|{float} {unit}};{float} {unit}' + slot_uri: MIXS:0000322 + multivalued: false + range: string + silicate: + name: silicate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of silicate + title: silicate + examples: + - value: 0.05 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - silicate + is_a: core field + slot_uri: MIXS:0000184 + multivalued: false + range: string + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://example.com/nmdc_submission_schema + aliases: + - size fraction selected + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + range: string + size_frac_low: + name: size_frac_low + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample + title: size-fraction lower threshold + examples: + - value: 0.2 micrometer + from_schema: https://example.com/nmdc_submission_schema + aliases: + - size-fraction lower threshold + is_a: core field + slot_uri: MIXS:0000735 + multivalued: false + range: string + size_frac_up: + name: size_frac_up + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample + title: size-fraction upper threshold + examples: + - value: 20 micrometer + from_schema: https://example.com/nmdc_submission_schema + aliases: + - size-fraction upper threshold + is_a: core field + slot_uri: MIXS:0000736 + multivalued: false + range: string + slope_aspect: + name: slope_aspect + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree + occurrence: + tag: occurrence + value: '1' + description: The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees); e.g., nw or 315 degrees. This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration. + title: slope aspect + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - slope aspect + is_a: core field + slot_uri: MIXS:0000647 + multivalued: false + range: string + slope_gradient: + name: slope_gradient + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer + title: slope gradient + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - slope gradient + is_a: core field + slot_uri: MIXS:0000646 + multivalued: false + range: string + sludge_retent_time: + name: sludge_retent_time + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: hours + occurrence: + tag: occurrence + value: '1' + description: The time activated sludge remains in reactor + title: sludge retention time + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sludge retention time + is_a: core field + slot_uri: MIXS:0000669 + multivalued: false + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sodium + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + range: string + soil_horizon: + name: soil_horizon + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath + title: soil horizon + examples: + - value: A horizon + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil horizon + is_a: core field + slot_uri: MIXS:0001082 + multivalued: false + range: soil_horizon_enum + soil_text_measure: + name: soil_text_measure + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional. + title: soil texture measurement + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil texture measurement + is_a: core field + slot_uri: MIXS:0000335 + multivalued: false + range: string + soil_texture_meth: + name: soil_texture_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining soil texture + title: soil texture method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil texture method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000336 + multivalued: false + range: string + soil_type: + name: soil_type + annotations: + expected_value: + tag: expected_value + value: ENVO_00001998 + occurrence: + tag: occurrence + value: '1' + description: Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes. + title: soil type + examples: + - value: plinthosol [ENVO:00002250] + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil type + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000332 + multivalued: false + range: string + soil_type_meth: + name: soil_type_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining soil series name or other lower-level classification + title: soil type method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soil type method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000334 + multivalued: false + range: string + solar_irradiance: + name: solar_irradiance + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilowatts per square meter per day, ergs per square centimeter per second + occurrence: + tag: occurrence + value: '1' + description: The amount of solar energy that arrives at a specific area of a surface during a specific time interval + title: solar irradiance + examples: + - value: 1.36 kilowatts per square meter per day + from_schema: https://example.com/nmdc_submission_schema + aliases: + - solar irradiance + is_a: core field + slot_uri: MIXS:0000112 + multivalued: false + range: string + soluble_inorg_mat: + name: soluble_inorg_mat + annotations: + expected_value: + tag: expected_value + value: soluble inorganic material name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter, parts per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc. + title: soluble inorganic material + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soluble inorganic material + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000672 + multivalued: false + range: string + soluble_org_mat: + name: soluble_org_mat + annotations: + expected_value: + tag: expected_value + value: soluble organic material name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter, parts per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc. + title: soluble organic material + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soluble organic material + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000673 + multivalued: false + range: string + soluble_react_phosp: + name: soluble_react_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of soluble reactive phosphorus + title: soluble reactive phosphorus + examples: + - value: 0.1 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - soluble reactive phosphorus + is_a: core field + slot_uri: MIXS:0000738 + multivalued: false + range: string + source_mat_id: + name: source_mat_id + annotations: + expected_value: + tag: expected_value + value: 'for cultures of microorganisms: identifiers for two culture collections; for other material a unique arbitrary identifer' + description: A unique identifier assigned to a material sample (as defined by http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular digital record of a material sample) used for extracting nucleic acids, and subsequent sequencing. The identifier can refer either to the original material collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher, /bio_material, or /culture_collection may or may not share the same value as the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id may both contain 'UAM:Herps:14' , referring to both the specimen voucher and sampled tissue with the same identifier. However, the /culture_collection qualifier may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id would refer to an identifier from some derived culture from which the nucleic acids were extracted (e.g. xatc123 or ark:/2154/R2). + title: source material identifiers + examples: + - value: MPI012345 + from_schema: https://example.com/nmdc_submission_schema + aliases: + - source material identifiers + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000026 + multivalued: false + range: string + space_typ_state: + name: space_typ_state + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Customary or normal state of the space + title: space typical state + examples: + - value: typically occupied + from_schema: https://example.com/nmdc_submission_schema + aliases: + - space typical state + is_a: core field + string_serialization: '[typically occupied|typically unoccupied]' + slot_uri: MIXS:0000770 + multivalued: false + range: string + specific: + name: specific + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents' + title: specifications + examples: + - value: construction + from_schema: https://example.com/nmdc_submission_schema + aliases: + - specifications + is_a: core field + slot_uri: MIXS:0000836 + multivalued: false + range: specific_enum + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://gold.jgi.doe.gov/help + is_a: gold_path_field + specific_humidity: + name: specific_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram of air, kilogram of air + occurrence: + tag: occurrence + value: '1' + description: The mass of water vapour in a unit mass of moist air, usually expressed as grams of vapour per kilogram of air, or, in air conditioning, as grains per pound. + title: specific humidity + examples: + - value: 15 per kilogram of air + from_schema: https://example.com/nmdc_submission_schema + aliases: + - specific humidity + is_a: core field + slot_uri: MIXS:0000214 + multivalued: false + range: string + sr_dep_env: + name: sr_dep_env + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If "other" is specified, please propose entry in "additional info" field + title: source rock depositional environment + examples: + - value: Marine + from_schema: https://example.com/nmdc_submission_schema + aliases: + - source rock depositional environment + is_a: core field + slot_uri: MIXS:0000996 + multivalued: false + range: sr_dep_env_enum + sr_geol_age: + name: sr_geol_age + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If "other" is specified, please propose entry in "additional info" field' + title: source rock geological age + examples: + - value: Silurian + from_schema: https://example.com/nmdc_submission_schema + aliases: + - source rock geological age + is_a: core field + slot_uri: MIXS:0000997 + multivalued: false + range: sr_geol_age_enum + sr_kerog_type: + name: sr_kerog_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If "other" is specified, please propose entry in "additional info" field' + title: source rock kerogen type + examples: + - value: Type IV + from_schema: https://example.com/nmdc_submission_schema + aliases: + - source rock kerogen type + is_a: core field + slot_uri: MIXS:0000994 + multivalued: false + range: sr_kerog_type_enum + sr_lithology: + name: sr_lithology + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If "other" is specified, please propose entry in "additional info" field + title: source rock lithology + examples: + - value: Coal + from_schema: https://example.com/nmdc_submission_schema + aliases: + - source rock lithology + is_a: core field + slot_uri: MIXS:0000995 + multivalued: false + range: sr_lithology_enum + standing_water_regm: + name: standing_water_regm + annotations: + expected_value: + tag: expected_value + value: standing water type;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: standing water regimen + examples: + - value: standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - standing water regimen + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001069 + multivalued: false + range: string + start_date_inc: + name: start_date_inc + description: Date the incubation was started. Only relevant for incubation samples. + title: incubation start date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:collection_date + rank: 4 + string_serialization: '{date, arbitrary precision}' + slot_group: MIxS Inspired + recommended: true + start_time_inc: + name: start_time_inc + description: Time the incubation was started. Only relevant for incubation samples. + title: incubation start time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://example.com/nmdc_submission_schema + see_also: + - MIxS:collection_date + rank: 5 + string_serialization: '{time, seconds optional}' + slot_group: MIxS Inspired + recommended: true + store_cond: + name: store_cond + annotations: + expected_value: + tag: expected_value + value: storage condition type;duration + occurrence: + tag: occurrence + value: '1' + description: Explain how and for how long the soil sample was stored before DNA extraction (fresh/frozen/other). + title: storage conditions + examples: + - value: -20 degree Celsius freezer;P2Y10D + from_schema: https://example.com/nmdc_submission_schema + aliases: + - storage conditions + is_a: core field + string_serialization: '{text};{duration}' + slot_uri: MIXS:0000327 + multivalued: false + range: string + substructure_type: + name: substructure_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: The substructure or under building is that largely hidden section of the building which is built off the foundations to the ground floor level + title: substructure type + examples: + - value: basement + from_schema: https://example.com/nmdc_submission_schema + aliases: + - substructure type + is_a: core field + slot_uri: MIXS:0000767 + multivalued: true + range: substructure_type_enum + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sulfate + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + range: string + sulfate_fw: + name: sulfate_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original sulfate concentration in the hydrocarbon resource + title: sulfate in formation water + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sulfate in formation water + is_a: core field + slot_uri: MIXS:0000407 + multivalued: false + range: string + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - sulfide + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + range: string + surf_air_cont: + name: surf_air_cont + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Contaminant identified on surface + title: surface-air contaminant + examples: + - value: radon + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface-air contaminant + is_a: core field + slot_uri: MIXS:0000759 + multivalued: true + range: surf_air_cont_enum + surf_humidity: + name: surf_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: 'Surfaces: water activity as a function of air and material moisture' + title: surface humidity + examples: + - value: 10% + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface humidity + is_a: core field + slot_uri: MIXS:0000123 + multivalued: false + range: string + surf_material: + name: surf_material + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Surface materials at the point of sampling + title: surface material + examples: + - value: wood + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface material + is_a: core field + slot_uri: MIXS:0000758 + multivalued: false + range: surf_material_enum + surf_moisture: + name: surf_moisture + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million, gram per cubic meter, gram per square meter + occurrence: + tag: occurrence + value: '1' + description: Water held on a surface + title: surface moisture + examples: + - value: 0.01 gram per square meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface moisture + is_a: core field + slot_uri: MIXS:0000128 + multivalued: false + range: string + surf_moisture_ph: + name: surf_moisture_ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: ph measurement of surface + title: surface moisture pH + examples: + - value: '7' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface moisture pH + is_a: core field + slot_uri: MIXS:0000760 + multivalued: false + range: double + surf_temp: + name: surf_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature of the surface at the time of sampling + title: surface temperature + examples: + - value: 15 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - surface temperature + is_a: core field + slot_uri: MIXS:0000125 + multivalued: false + range: string + suspend_part_matter: + name: suspend_part_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of suspended particulate matter + title: suspended particulate matter + examples: + - value: 0.5 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - suspended particulate matter + is_a: core field + slot_uri: MIXS:0000741 + multivalued: false + range: string + suspend_solids: + name: suspend_solids + annotations: + expected_value: + tag: expected_value + value: suspended solid name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, milligram per liter, mole per liter, gram per liter, part per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances + title: suspended solids + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - suspended solids + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000150 + multivalued: false + range: string + tan: + name: tan + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)' + title: total acid number + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total acid number + is_a: core field + slot_uri: MIXS:0000120 + multivalued: false + range: string + technical_reps: + name: technical_reps + description: If sending technical replicates of the same sample, indicate the replicate count. + title: number technical replicate + comments: + - This field is only required when completing metadata for samples being submitted to EMSL for analyses. + examples: + - value: '2' + from_schema: https://example.com/nmdc_submission_schema + rank: 5 + string_serialization: '{integer}' + slot_group: EMSL + recommended: true + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - temperature + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + range: string + temp_out: + name: temp_out + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The recorded temperature value at sampling time outside + title: temperature outside house + examples: + - value: 5 degree Celsius + from_schema: https://example.com/nmdc_submission_schema + aliases: + - temperature outside house + is_a: core field + slot_uri: MIXS:0000197 + multivalued: false + range: string + tertiary_treatment: + name: tertiary_treatment + annotations: + expected_value: + tag: expected_value + value: tertiary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment + title: tertiary treatment + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - tertiary treatment + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000352 + multivalued: false + range: string + tidal_stage: + name: tidal_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of tide + title: tidal stage + examples: + - value: high tide + from_schema: https://example.com/nmdc_submission_schema + aliases: + - tidal stage + is_a: core field + slot_uri: MIXS:0000750 + multivalued: false + range: tidal_stage_enum + tillage: + name: tillage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Note method(s) used for tilling + title: history/tillage + examples: + - value: chisel + from_schema: https://example.com/nmdc_submission_schema + aliases: + - history/tillage + is_a: core field + slot_uri: MIXS:0001081 + multivalued: true + range: tillage_enum + tiss_cult_growth_med: + name: tiss_cult_growth_med + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Description of plant tissue culture growth media used + title: tissue culture growth media + examples: + - value: https://link.springer.com/content/pdf/10.1007/BF02796489.pdf + from_schema: https://example.com/nmdc_submission_schema + aliases: + - tissue culture growth media + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001070 + multivalued: false + range: string + toluene: + name: toluene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of toluene in the sample + title: toluene + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - toluene + is_a: core field + slot_uri: MIXS:0000154 + multivalued: false + range: string + tot_carb: + name: tot_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Total carbon content + title: total carbon + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total carbon + is_a: core field + slot_uri: MIXS:0000525 + multivalued: false + range: string + tot_depth_water_col: + name: tot_depth_water_col + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Measurement of total depth of water column + title: total depth of water column + examples: + - value: 500 meter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total depth of water column + is_a: core field + slot_uri: MIXS:0000634 + multivalued: false + range: string + tot_diss_nitro: + name: tot_diss_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen' + title: total dissolved nitrogen + examples: + - value: 40 microgram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total dissolved nitrogen + is_a: core field + slot_uri: MIXS:0000744 + multivalued: false + range: string + tot_inorg_nitro: + name: tot_inorg_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Total inorganic nitrogen content + title: total inorganic nitrogen + examples: + - value: 40 microgram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total inorganic nitrogen + is_a: core field + slot_uri: MIXS:0000745 + multivalued: false + range: string + tot_iron: + name: tot_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, milligram per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of total iron in the sample + title: total iron + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total iron + is_a: core field + slot_uri: MIXS:0000105 + multivalued: false + range: string + tot_nitro: + name: tot_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen' + title: total nitrogen concentration + examples: + - value: 50 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total nitrogen concentration + is_a: core field + slot_uri: MIXS:0000102 + multivalued: false + range: string + tot_nitro_cont_meth: + name: tot_nitro_cont_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the total nitrogen + title: total nitrogen content method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total nitrogen content method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000338 + multivalued: false + range: string + tot_nitro_content: + name: tot_nitro_content + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Total nitrogen content of the sample + title: total nitrogen content + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total nitrogen content + is_a: core field + slot_uri: MIXS:0000530 + multivalued: false + range: string + tot_org_c_meth: + name: tot_org_c_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining total organic carbon + title: total organic carbon method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total organic carbon method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000337 + multivalued: false + range: string + tot_org_carb: + name: tot_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram Carbon per kilogram sample material + occurrence: + tag: occurrence + value: '1' + description: 'Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content' + title: total organic carbon + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total organic carbon + is_a: core field + slot_uri: MIXS:0000533 + multivalued: false + range: string + tot_part_carb: + name: tot_part_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Total particulate carbon content + title: total particulate carbon + examples: + - value: 35 micromole per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total particulate carbon + is_a: core field + slot_uri: MIXS:0000747 + multivalued: false + range: string + tot_phosp: + name: tot_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: 'Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus' + title: total phosphorus + examples: + - value: 0.03 milligram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total phosphorus + is_a: core field + slot_uri: MIXS:0000117 + multivalued: false + range: string + tot_phosphate: + name: tot_phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Total amount or concentration of phosphate + title: total phosphate + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total phosphate + is_a: core field + slot_uri: MIXS:0000689 + multivalued: false + range: string + tot_sulfur: + name: tot_sulfur + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of total sulfur in the sample + title: total sulfur + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - total sulfur + is_a: core field + slot_uri: MIXS:0000419 + multivalued: false + range: string + train_line: + name: train_line + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The subway line name + title: train line + examples: + - value: red + from_schema: https://example.com/nmdc_submission_schema + aliases: + - train line + is_a: core field + slot_uri: MIXS:0000837 + multivalued: false + range: train_line_enum + train_stat_loc: + name: train_stat_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The train station collection location + title: train station collection location + examples: + - value: forest hills + from_schema: https://example.com/nmdc_submission_schema + aliases: + - train station collection location + is_a: core field + slot_uri: MIXS:0000838 + multivalued: false + range: train_stat_loc_enum + train_stop_loc: + name: train_stop_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The train stop collection location + title: train stop collection location + examples: + - value: end + from_schema: https://example.com/nmdc_submission_schema + aliases: + - train stop collection location + is_a: core field + slot_uri: MIXS:0000839 + multivalued: false + range: train_stop_loc_enum + turbidity: + name: turbidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: formazin turbidity unit, formazin nephelometric units + occurrence: + tag: occurrence + value: '1' + description: Measure of the amount of cloudiness or haziness in water caused by individual particles + title: turbidity + examples: + - value: 0.3 nephelometric turbidity units + from_schema: https://example.com/nmdc_submission_schema + aliases: + - turbidity + is_a: core field + slot_uri: MIXS:0000191 + multivalued: false + range: string + tvdss_of_hcr_press: + name: tvdss_of_hcr_press + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m). + title: depth (TVDSS) of hydrocarbon resource pressure + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - depth (TVDSS) of hydrocarbon resource pressure + is_a: core field + slot_uri: MIXS:0000397 + multivalued: false + range: string + tvdss_of_hcr_temp: + name: tvdss_of_hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m). + title: depth (TVDSS) of hydrocarbon resource temperature + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - depth (TVDSS) of hydrocarbon resource temperature + is_a: core field + slot_uri: MIXS:0000394 + multivalued: false + range: string + typ_occup_density: + name: typ_occup_density + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Customary or normal density of occupants + title: typical occupant density + examples: + - value: '25' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - typical occupant density + is_a: core field + slot_uri: MIXS:0000771 + multivalued: false + range: double + ventilation_rate: + name: ventilation_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per minute, liters per second + occurrence: + tag: occurrence + value: '1' + description: Ventilation rate of the system in the sampled premises + title: ventilation rate + examples: + - value: 750 cubic meter per minute + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ventilation rate + is_a: core field + slot_uri: MIXS:0000114 + multivalued: false + range: string + ventilation_type: + name: ventilation_type + annotations: + expected_value: + tag: expected_value + value: ventilation type name + occurrence: + tag: occurrence + value: '1' + description: Ventilation system used in the sampled premises + title: ventilation type + examples: + - value: Operable windows + from_schema: https://example.com/nmdc_submission_schema + aliases: + - ventilation type + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000756 + multivalued: false + range: string + vfa: + name: vfa + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of Volatile Fatty Acids in the sample + title: volatile fatty acids + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - volatile fatty acids + is_a: core field + slot_uri: MIXS:0000152 + multivalued: false + range: string + vfa_fw: + name: vfa_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original volatile fatty acid concentration in the hydrocarbon resource + title: vfa in formation water + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - vfa in formation water + is_a: core field + slot_uri: MIXS:0000408 + multivalued: false + range: string + vis_media: + name: vis_media + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building visual media + title: visual media + examples: + - value: 3D scans + from_schema: https://example.com/nmdc_submission_schema + aliases: + - visual media + is_a: core field + slot_uri: MIXS:0000840 + multivalued: false + range: vis_media_enum + viscosity: + name: viscosity + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: cP at degree Celsius + occurrence: + tag: occurrence + value: '1' + description: A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C) + title: viscosity + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - viscosity + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000126 + multivalued: false + range: string + volatile_org_comp: + name: volatile_org_comp + annotations: + expected_value: + tag: expected_value + value: volatile organic compound name;measurement value + preferred_unit: + tag: preferred_unit + value: microgram per cubic meter, parts per million, nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound + title: volatile organic compounds + examples: + - value: formaldehyde;500 nanogram per liter + from_schema: https://example.com/nmdc_submission_schema + aliases: + - volatile organic compounds + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000115 + multivalued: false + range: string + wall_area: + name: wall_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The total area of the sampled room's walls + title: wall area + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall area + is_a: core field + slot_uri: MIXS:0000198 + multivalued: false + range: string + wall_const_type: + name: wall_const_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building class of the wall defined by the composition of the building elements and fire-resistance rating. + title: wall construction type + examples: + - value: fire resistive + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall construction type + is_a: core field + slot_uri: MIXS:0000841 + multivalued: false + range: wall_const_type_enum + wall_finish_mat: + name: wall_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The material utilized to finish the outer most layer of the wall + title: wall finish material + examples: + - value: wood + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall finish material + is_a: core field + slot_uri: MIXS:0000842 + multivalued: false + range: wall_finish_mat_enum + wall_height: + name: wall_height + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: centimeter + occurrence: + tag: occurrence + value: '1' + description: The average height of the walls in the sampled room + title: wall height + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall height + is_a: core field + slot_uri: MIXS:0000221 + multivalued: false + range: string + wall_loc: + name: wall_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the wall within the room + title: wall location + examples: + - value: north + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall location + is_a: core field + slot_uri: MIXS:0000843 + multivalued: false + range: wall_loc_enum + wall_surf_treatment: + name: wall_surf_treatment + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The surface treatment of interior wall + title: wall surface treatment + examples: + - value: paneling + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall surface treatment + is_a: core field + slot_uri: MIXS:0000845 + multivalued: false + range: wall_surf_treatment_enum + wall_texture: + name: wall_texture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The feel, appearance, or consistency of a wall surface + title: wall texture + examples: + - value: popcorn + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall texture + is_a: core field + slot_uri: MIXS:0000846 + multivalued: false + range: wall_texture_enum + wall_thermal_mass: + name: wall_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the wall to provide inertia against temperature fluctuations. Generally this means concrete or concrete block that is either exposed or covered only with paint + title: wall thermal mass + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall thermal mass + is_a: core field + slot_uri: MIXS:0000222 + multivalued: false + range: string + wall_water_mold: + name: wall_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on a wall + title: wall signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wall signs of water/mold + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000844 + multivalued: false + range: string + wastewater_type: + name: wastewater_type + annotations: + expected_value: + tag: expected_value + value: wastewater type name + occurrence: + tag: occurrence + value: '1' + description: The origin of wastewater such as human waste, rainfall, storm drains, etc. + title: wastewater type + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wastewater type + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000353 + multivalued: false + range: string + water_cont_soil_meth: + name: water_cont_soil_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the water content of soil + title: water content method + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water content method + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000323 + multivalued: false + range: string + water_content: + name: water_content + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per gram or cubic centimeter per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Water content measurement + title: water content + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water content + is_a: core field + slot_uri: MIXS:0000185 + multivalued: false + range: string + water_current: + name: water_current + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per second, knots + occurrence: + tag: occurrence + value: '1' + description: Measurement of magnitude and direction of flow within a fluid + title: water current + examples: + - value: 10 cubic meter per second + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water current + is_a: core field + slot_uri: MIXS:0000203 + multivalued: false + range: string + water_cut: + name: water_cut + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: Current amount of water (%) in a produced fluid stream; or the average of the combined streams + title: water cut + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water cut + is_a: core field + slot_uri: MIXS:0000454 + multivalued: false + range: string + water_feat_size: + name: water_feat_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The size of the water feature + title: water feature size + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water feature size + is_a: core field + slot_uri: MIXS:0000223 + multivalued: false + range: string + water_feat_type: + name: water_feat_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of water feature present within the building being sampled + title: water feature type + examples: + - value: stream + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water feature type + is_a: core field + slot_uri: MIXS:0000847 + multivalued: false + range: water_feat_type_enum + water_prod_rate: + name: water_prod_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Water production rates per well (e.g. 987 m3 / day) + title: water production rate + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water production rate + is_a: core field + slot_uri: MIXS:0000453 + multivalued: false + range: string + water_temp_regm: + name: water_temp_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: water temperature regimen + examples: + - value: 15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - water temperature regimen + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000590 + multivalued: false + range: string + watering_regm: + name: watering_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: milliliter, liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: watering regimen + examples: + - value: 1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://example.com/nmdc_submission_schema + aliases: + - watering regimen + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000591 + multivalued: false + range: string + weekday: + name: weekday + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The day of the week when sampling occurred + title: weekday + examples: + - value: Sunday + from_schema: https://example.com/nmdc_submission_schema + aliases: + - weekday + is_a: core field + slot_uri: MIXS:0000848 + multivalued: false + range: weekday_enum + win: + name: win + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: 'A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)' + title: well identification number + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - well identification number + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000297 + multivalued: false + range: string + wind_direction: + name: wind_direction + annotations: + expected_value: + tag: expected_value + value: wind direction name + occurrence: + tag: occurrence + value: '1' + description: Wind direction is the direction from which a wind originates + title: wind direction + examples: + - value: Northwest + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wind direction + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000757 + multivalued: false + range: string + wind_speed: + name: wind_speed + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second, kilometer per hour + occurrence: + tag: occurrence + value: '1' + description: Speed of wind measured at the time of sampling + title: wind speed + examples: + - value: 21 kilometer per hour + from_schema: https://example.com/nmdc_submission_schema + aliases: + - wind speed + is_a: core field + slot_uri: MIXS:0000118 + multivalued: false + range: string + window_cond: + name: window_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the window at the time of sampling + title: window condition + examples: + - value: rupture + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window condition + is_a: core field + slot_uri: MIXS:0000849 + multivalued: false + range: window_cond_enum + window_cover: + name: window_cover + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of window covering + title: window covering + examples: + - value: curtains + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window covering + is_a: core field + slot_uri: MIXS:0000850 + multivalued: false + range: window_cover_enum + window_horiz_pos: + name: window_horiz_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The horizontal position of the window on the wall + title: window horizontal position + examples: + - value: middle + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window horizontal position + is_a: core field + slot_uri: MIXS:0000851 + multivalued: false + range: window_horiz_pos_enum + window_loc: + name: window_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the window within the room + title: window location + examples: + - value: west + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window location + is_a: core field + slot_uri: MIXS:0000852 + multivalued: false + range: window_loc_enum + window_mat: + name: window_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of material used to finish a window + title: window material + examples: + - value: wood + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window material + is_a: core field + slot_uri: MIXS:0000853 + multivalued: false + range: window_mat_enum + window_open_freq: + name: window_open_freq + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of times windows are opened per week + title: window open frequency + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window open frequency + is_a: core field + slot_uri: MIXS:0000246 + multivalued: false + range: string + window_size: + name: window_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: inch, meter + occurrence: + tag: occurrence + value: '1' + description: The window's length and width + title: window area/size + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window area/size + is_a: core field + string_serialization: '{float} {unit} x {float} {unit}' + slot_uri: MIXS:0000224 + multivalued: false + range: string + window_status: + name: window_status + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Defines whether the windows were open or closed during environmental testing + title: window status + examples: + - value: open + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window status + is_a: core field + string_serialization: '[closed|open]' + slot_uri: MIXS:0000855 + multivalued: false + range: string + window_type: + name: window_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of windows + title: window type + examples: + - value: fixed window + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window type + is_a: core field + slot_uri: MIXS:0000856 + multivalued: false + range: window_type_enum + window_vert_pos: + name: window_vert_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The vertical position of the window on the wall + title: window vertical position + examples: + - value: middle + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window vertical position + is_a: core field + slot_uri: MIXS:0000857 + multivalued: false + range: window_vert_pos_enum + window_water_mold: + name: window_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the window. + title: window signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://example.com/nmdc_submission_schema + aliases: + - window signs of water/mold + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000854 + multivalued: false + range: string + xylene: + name: xylene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of xylene in the sample + title: xylene + examples: + - value: '' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - xylene + is_a: core field + slot_uri: MIXS:0000156 + multivalued: false + range: string + zinc: + name: zinc + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg (ppm) + occurrence: + tag: occurrence + value: '1' + description: Concentration of zinc in the sample + title: zinc + examples: + - value: 2.5 mg/kg + from_schema: https://example.com/nmdc_submission_schema + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - zinc + is_a: attribute + range: string + multivalued: false + gold_path_field: + name: gold_path_field + description: This is a grouping for any of the gold path fields + from_schema: https://example.com/nmdc_submission_schema + is_a: attribute + abstract: true + range: string + multivalued: false + nucleic acid sequence source field: + name: nucleic acid sequence source field + from_schema: https://example.com/nmdc_submission_schema + abstract: true + alternative_identifiers: + name: alternative_identifiers + description: A list of alternative identifiers for the entity. + from_schema: https://example.com/nmdc_submission_schema + multivalued: false + range: string + attribute: + name: attribute + description: 'A attribute of a biosample. Examples: depth, habitat, material. For NMDC, attributes SHOULD be mapped to terms within a MIxS template' + from_schema: https://example.com/nmdc_submission_schema + aliases: + - field + - property + - template field + - key + - characteristic + abstract: true + environment field: + name: environment field + description: field describing environmental aspect of a sample + from_schema: https://example.com/nmdc_submission_schema + abstract: true + investigation field: + name: investigation field + description: field describing aspect of the investigation/study to which the sample belongs + from_schema: https://example.com/nmdc_submission_schema + abstract: true + description: + name: description + description: a human-readable description of a thing + from_schema: https://example.com/nmdc_submission_schema + slot_uri: dcterms:description + range: string + multivalued: false + language: + name: language + description: Should use ISO 639-1 code e.g. "en", "fr" + from_schema: https://example.com/nmdc_submission_schema + range: language code + name: + name: name + description: A human readable label for an entity + from_schema: https://example.com/nmdc_submission_schema + range: string + multivalued: false + core field: + name: core field + description: basic fields + from_schema: https://example.com/nmdc_submission_schema + abstract: true + id: + name: id + description: A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI + notes: + - 'abstracted pattern: prefix:typecode-authshoulder-blade(.version)?(_seqsuffix)?' + - a minimum length of 3 characters is suggested for typecodes, but 1 or 2 characters will be accepted + - typecodes must correspond 1:1 to a class in the NMDC schema. this will be checked via per-class id slot usage assertions + - minting authority shoulders should probably be enumerated and checked in the pattern + examples: + - value: nmdc:mgmag-00-x012.1_7_c1 + description: https://github.com/microbiomedata/nmdc-schema/pull/499#discussion_r1018499248 + from_schema: https://example.com/nmdc_submission_schema + identifier: true + range: uriorcurie + required: true +classes: + AirInterface: + name: AirInterface + description: air dh_interface + title: Air + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - air_PM_concen + - alt + - barometric_press + - carb_dioxide + - carb_monoxide + - chem_administration + - collection_date + - depth + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - geo_loc_name + - horizon_meth + - humidity + - lat_lon + - methane + - misc_param + - organism_count + - oxy_stat_samp + - oxygen + - perturbation + - pollutants + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - size_frac + - solar_irradiance + - specific_ecosystem + - temp + - ventilation_rate + - ventilation_type + - volatile_org_comp + - wind_direction + - wind_speed + slot_usage: + air_PM_concen: + name: air_PM_concen + annotations: + expected_value: + tag: expected_value + value: particulate matter name;measurement value + preferred_unit: + tag: preferred_unit + value: micrograms per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of substances that remain suspended in the air, and comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can report multiple PM's by entering numeric values preceded by name of PM + title: air particulate matter concentration + examples: + - value: PM2.5;10 microgram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - air particulate matter concentration + rank: 48 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000108 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - altitude + rank: 26 + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + barometric_press: + name: barometric_press + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millibar + occurrence: + tag: occurrence + value: '1' + description: Force per unit area exerted against a surface by the weight of air above that surface + title: barometric pressure + examples: + - value: 5 millibar + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - barometric pressure + rank: 49 + is_a: core field + slot_uri: MIXS:0000096 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + carb_dioxide: + name: carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Carbon dioxide (gas) amount or concentration at the time of sampling + title: carbon dioxide + examples: + - value: 410 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon dioxide + rank: 50 + is_a: core field + slot_uri: MIXS:0000097 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + carb_monoxide: + name: carb_monoxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Carbon monoxide (gas) amount or concentration at the time of sampling + title: carbon monoxide + examples: + - value: 0.1 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon monoxide + rank: 51 + is_a: core field + slot_uri: MIXS:0000098 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + humidity: + name: humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter + occurrence: + tag: occurrence + value: '1' + description: Amount of water vapour in the air, at the time of sampling + title: humidity + examples: + - value: 25 gram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - humidity + rank: 52 + is_a: core field + slot_uri: MIXS:0000100 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + methane: + name: methane + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per billion, parts per million + occurrence: + tag: occurrence + value: '1' + description: Methane (gas) amount or concentration at the time of sampling + title: methane + examples: + - value: 1800 parts per billion + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - methane + rank: 24 + is_a: core field + slot_uri: MIXS:0000101 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + oxygen: + name: oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Oxygen (gas) amount or concentration at the time of sampling + title: oxygen + examples: + - value: 600 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - oxygen + rank: 53 + is_a: core field + slot_uri: MIXS:0000104 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pollutants: + name: pollutants + annotations: + expected_value: + tag: expected_value + value: pollutant name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter, microgram per cubic meter + occurrence: + tag: occurrence + value: m + description: Pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant + title: pollutants + examples: + - value: lead;0.15 microgram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pollutants + rank: 54 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000107 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + solar_irradiance: + name: solar_irradiance + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilowatts per square meter per day, ergs per square centimeter per second + occurrence: + tag: occurrence + value: '1' + description: The amount of solar energy that arrives at a specific area of a surface during a specific time interval + title: solar irradiance + examples: + - value: 1.36 kilowatts per square meter per day + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - solar irradiance + rank: 55 + is_a: core field + slot_uri: MIXS:0000112 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ventilation_rate: + name: ventilation_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per minute, liters per second + occurrence: + tag: occurrence + value: '1' + description: Ventilation rate of the system in the sampled premises + title: ventilation rate + examples: + - value: 750 cubic meter per minute + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ventilation rate + rank: 56 + is_a: core field + slot_uri: MIXS:0000114 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ventilation_type: + name: ventilation_type + annotations: + expected_value: + tag: expected_value + value: ventilation type name + occurrence: + tag: occurrence + value: '1' + description: Ventilation system used in the sampled premises + title: ventilation type + examples: + - value: Operable windows + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ventilation type + rank: 57 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000756 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + volatile_org_comp: + name: volatile_org_comp + annotations: + expected_value: + tag: expected_value + value: volatile organic compound name;measurement value + preferred_unit: + tag: preferred_unit + value: microgram per cubic meter, parts per million, nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound + title: volatile organic compounds + examples: + - value: formaldehyde;500 nanogram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - volatile organic compounds + rank: 58 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000115 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + wind_direction: + name: wind_direction + annotations: + expected_value: + tag: expected_value + value: wind direction name + occurrence: + tag: occurrence + value: '1' + description: Wind direction is the direction from which a wind originates + title: wind direction + examples: + - value: Northwest + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wind direction + rank: 59 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000757 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + wind_speed: + name: wind_speed + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second, kilometer per hour + occurrence: + tag: occurrence + value: '1' + description: Speed of wind measured at the time of sampling + title: wind speed + examples: + - value: 21 kilometer per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wind speed + rank: 60 + is_a: core field + slot_uri: MIXS:0000118 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + BiofilmInterface: + name: BiofilmInterface + description: biofilm dh_interface + title: Biofilm + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - alkalinity + - alkyl_diethers + - alt + - aminopept_act + - ammonium + - bacteria_carb_prod + - biomass + - bishomohopanol + - bromide + - calcium + - carb_nitro_ratio + - chem_administration + - chloride + - chlorophyll + - collection_date + - depth + - diether_lipids + - diss_carb_dioxide + - diss_hydrogen + - diss_inorg_carb + - diss_org_carb + - diss_org_nitro + - diss_oxygen + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - geo_loc_name + - glucosidase_act + - horizon_meth + - lat_lon + - magnesium + - mean_frict_vel + - mean_peak_frict_vel + - methane + - misc_param + - n_alkanes + - nitrate + - nitrite + - nitro + - org_carb + - org_matter + - org_nitro + - organism_count + - oxy_stat_samp + - part_org_carb + - perturbation + - petroleum_hydrocarb + - ph + - ph_meth + - phaeopigments + - phosphate + - phosplipid_fatt_acid + - potassium + - pressure + - redox_potential + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - silicate + - size_frac + - sodium + - specific_ecosystem + - sulfate + - sulfide + - temp + - tot_carb + - tot_nitro_content + - tot_org_carb + - turbidity + - water_content + slot_usage: + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alkyl_diethers: + name: alkyl_diethers + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of alkyl diethers + title: alkyl diethers + examples: + - value: 0.005 mole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkyl diethers + rank: 2 + is_a: core field + slot_uri: MIXS:0000490 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - altitude + rank: 26 + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + aminopept_act: + name: aminopept_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of aminopeptidase activity + title: aminopeptidase activity + examples: + - value: 0.269 mole per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aminopeptidase activity + rank: 3 + is_a: core field + slot_uri: MIXS:0000172 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bacteria_carb_prod: + name: bacteria_carb_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial carbon production + title: bacterial carbon production + examples: + - value: 2.53 microgram per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bacterial carbon production + rank: 5 + is_a: core field + slot_uri: MIXS:0000173 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biomass: + name: biomass + annotations: + expected_value: + tag: expected_value + value: biomass type;measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram + occurrence: + tag: occurrence + value: m + description: Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements + title: biomass + examples: + - value: total;20 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biomass + rank: 6 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000174 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + bishomohopanol: + name: bishomohopanol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, microgram per gram + occurrence: + tag: occurrence + value: '1' + description: Concentration of bishomohopanol + title: bishomohopanol + examples: + - value: 14 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bishomohopanol + rank: 7 + is_a: core field + slot_uri: MIXS:0000175 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bromide: + name: bromide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of bromide + title: bromide + examples: + - value: 0.05 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bromide + rank: 8 + is_a: core field + slot_uri: MIXS:0000176 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + carb_nitro_ratio: + name: carb_nitro_ratio + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ratio of amount or concentrations of carbon to nitrogen + title: carbon/nitrogen ratio + examples: + - value: '0.417361111' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon/nitrogen ratio + rank: 44 + is_a: core field + slot_uri: MIXS:0000310 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: float + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chlorophyll: + name: chlorophyll + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter, microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of chlorophyll + title: chlorophyll + examples: + - value: 5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chlorophyll + rank: 11 + is_a: core field + slot_uri: MIXS:0000177 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + diether_lipids: + name: diether_lipids + annotations: + expected_value: + tag: expected_value + value: diether lipid name;measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of diether lipids; can include multiple types of diether lipids + title: diether lipids + examples: + - value: 0.2 nanogram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - diether lipids + rank: 13 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000178 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_hydrogen: + name: diss_hydrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved hydrogen + title: dissolved hydrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved hydrogen + rank: 15 + is_a: core field + slot_uri: MIXS:0000179 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic carbon + rank: 17 + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_nitro: + name: diss_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 + title: dissolved organic nitrogen + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic nitrogen + rank: 18 + is_a: core field + slot_uri: MIXS:0000162 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen: + name: diss_oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen + title: dissolved oxygen + examples: + - value: 175 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen + rank: 19 + is_a: core field + slot_uri: MIXS:0000119 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + glucosidase_act: + name: glucosidase_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mol per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of glucosidase activity + title: glucosidase activity + examples: + - value: 5 mol per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - glucosidase activity + rank: 20 + is_a: core field + slot_uri: MIXS:0000137 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + magnesium: + name: magnesium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter, parts per million, micromole per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of magnesium in the sample + title: magnesium + examples: + - value: 52.8 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - magnesium + rank: 21 + is_a: core field + slot_uri: MIXS:0000431 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_frict_vel: + name: mean_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean friction velocity + title: mean friction velocity + examples: + - value: 0.5 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean friction velocity + rank: 22 + is_a: core field + slot_uri: MIXS:0000498 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_peak_frict_vel: + name: mean_peak_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean peak friction velocity + title: mean peak friction velocity + examples: + - value: 1 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean peak friction velocity + rank: 23 + is_a: core field + slot_uri: MIXS:0000502 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + methane: + name: methane + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per billion, parts per million + occurrence: + tag: occurrence + value: '1' + description: Methane (gas) amount or concentration at the time of sampling + title: methane + examples: + - value: 1800 parts per billion + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - methane + rank: 24 + is_a: core field + slot_uri: MIXS:0000101 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + n_alkanes: + name: n_alkanes + annotations: + expected_value: + tag: expected_value + value: n-alkane name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of n-alkanes; can include multiple n-alkanes + title: n-alkanes + examples: + - value: n-hexadecane;100 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - n-alkanes + rank: 25 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000503 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitro: + name: nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrogen (total) + title: nitrogen + examples: + - value: 4.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrogen + rank: 28 + is_a: core field + slot_uri: MIXS:0000504 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_carb: + name: org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic carbon + title: organic carbon + examples: + - value: 1.5 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic carbon + rank: 29 + is_a: core field + slot_uri: MIXS:0000508 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic matter + rank: 45 + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic nitrogen + rank: 46 + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + part_org_carb: + name: part_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic carbon + title: particulate organic carbon + examples: + - value: 1.92 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - particulate organic carbon + rank: 31 + is_a: core field + slot_uri: MIXS:0000515 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + petroleum_hydrocarb: + name: petroleum_hydrocarb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of petroleum hydrocarbon + title: petroleum hydrocarbon + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - petroleum hydrocarbon + rank: 34 + is_a: core field + slot_uri: MIXS:0000516 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phaeopigments: + name: phaeopigments + annotations: + expected_value: + tag: expected_value + value: phaeopigment name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of phaeopigments; can include multiple phaeopigments + title: phaeopigments + examples: + - value: 2.5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phaeopigments + rank: 35 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000180 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + phosplipid_fatt_acid: + name: phosplipid_fatt_acid + annotations: + expected_value: + tag: expected_value + value: phospholipid fatty acid name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per gram, mole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of phospholipid fatty acids; can include multiple values + title: phospholipid fatty acid + examples: + - value: 2.98 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phospholipid fatty acid + rank: 36 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000181 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + redox_potential: + name: redox_potential + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millivolt + occurrence: + tag: occurrence + value: '1' + description: Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential + title: redox potential + examples: + - value: 300 millivolt + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - redox potential + rank: 40 + is_a: core field + slot_uri: MIXS:0000182 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + silicate: + name: silicate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of silicate + title: silicate + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - silicate + rank: 43 + is_a: core field + slot_uri: MIXS:0000184 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_carb: + name: tot_carb + description: Total carbon content + title: total carbon + todos: + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + examples: + - value: 1 ug/L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 47 + is_a: core field + slot_uri: MIXS:0000525 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro_content: + name: tot_nitro_content + description: Total nitrogen content of the sample + title: total nitrogen content + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 48 + is_a: core field + slot_uri: MIXS:0000530 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_org_carb: + name: tot_org_carb + description: 'Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content' + title: total organic carbon + todos: + - check description. How are they different? + - check description. How are they different? + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 50 + is_a: core field + slot_uri: MIXS:0000533 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + turbidity: + name: turbidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: formazin turbidity unit, formazin nephelometric units + occurrence: + tag: occurrence + value: '1' + description: Measure of the amount of cloudiness or haziness in water caused by individual particles + title: turbidity + examples: + - value: 0.3 nephelometric turbidity units + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - turbidity + rank: 47 + is_a: core field + slot_uri: MIXS:0000191 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_content: + name: water_content + annotations: + expected_value: + tag: expected_value + value: string + preferred_unit: + tag: preferred_unit + value: gram per gram or cubic centimeter per cubic centimeter + description: Water content measurement + title: water content + todos: + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + examples: + - value: 75% + - value: 75 % + - value: 0.75 g water/g dry soil + - value: 75% water holding capacity + - value: 1.1 g fresh weight/ dry weight + - value: 10% water filled pore space + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 39 + is_a: core field + string_serialization: '{float or pct} {unit}' + slot_uri: MIXS:0000185 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$ + BuiltEnvInterface: + name: BuiltEnvInterface + description: built_env dh_interface + title: Built Env + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - abs_air_humidity + - address + - adj_room + - aero_struc + - air_temp + - alt + - amount_light + - arch_struc + - avg_dew_point + - avg_occup + - avg_temp + - bathroom_count + - bedroom_count + - build_docs + - build_occup_type + - building_setting + - built_struc_age + - built_struc_set + - built_struc_type + - carb_dioxide + - ceil_area + - ceil_cond + - ceil_finish_mat + - ceil_struc + - ceil_texture + - ceil_thermal_mass + - ceil_type + - ceil_water_mold + - collection_date + - cool_syst_id + - date_last_rain + - depth + - dew_point + - door_comp_type + - door_cond + - door_direct + - door_loc + - door_mat + - door_move + - door_size + - door_type + - door_type_metal + - door_type_wood + - door_water_mold + - drawings + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - elevator + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - escalator + - exp_duct + - exp_pipe + - experimental_factor + - ext_door + - ext_wall_orient + - ext_window_orient + - filter_type + - fireplace_type + - floor_age + - floor_area + - floor_cond + - floor_count + - floor_finish_mat + - floor_struc + - floor_thermal_mass + - floor_water_mold + - freq_clean + - freq_cook + - furniture + - gender_restroom + - geo_loc_name + - hall_count + - handidness + - heat_cool_type + - heat_deliv_loc + - heat_sys_deliv_meth + - heat_system_id + - height_carper_fiber + - horizon_meth + - indoor_space + - indoor_surf + - inside_lux + - int_wall_cond + - last_clean + - lat_lon + - light_type + - max_occup + - mech_struc + - number_pets + - number_plants + - number_resident + - occup_density_samp + - occup_document + - occup_samp + - organism_count + - pres_animal_insect + - quad_pos + - rel_air_humidity + - rel_humidity_out + - rel_samp_loc + - room_air_exch_rate + - room_architec_elem + - room_condt + - room_connected + - room_count + - room_dim + - room_door_dist + - room_door_share + - room_hallway + - room_loc + - room_moist_dam_hist + - room_net_area + - room_occup + - room_samp_pos + - room_type + - room_vol + - room_wall_share + - room_window_count + - samp_floor + - samp_room_id + - samp_sort_meth + - samp_time_out + - samp_weather + - sample_link + - season + - season_use + - shad_dev_water_mold + - shading_device_cond + - shading_device_loc + - shading_device_mat + - shading_device_type + - size_frac + - space_typ_state + - specific + - specific_ecosystem + - specific_humidity + - substructure_type + - surf_air_cont + - surf_humidity + - surf_material + - surf_moisture + - surf_moisture_ph + - surf_temp + - temp + - temp_out + - train_line + - train_stat_loc + - train_stop_loc + - typ_occup_density + - ventilation_type + - vis_media + - wall_area + - wall_const_type + - wall_finish_mat + - wall_height + - wall_loc + - wall_surf_treatment + - wall_texture + - wall_thermal_mass + - wall_water_mold + - water_feat_size + - water_feat_type + - weekday + - window_cond + - window_cover + - window_horiz_pos + - window_loc + - window_mat + - window_open_freq + - window_size + - window_status + - window_type + - window_vert_pos + - window_water_mold + slot_usage: + abs_air_humidity: + name: abs_air_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per gram, kilogram per kilogram, kilogram, pound + occurrence: + tag: occurrence + value: '1' + description: Actual mass of water vapor - mh20 - present in the air water vapor mixture + title: absolute air humidity + examples: + - value: 9 gram per gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - absolute air humidity + rank: 61 + is_a: core field + slot_uri: MIXS:0000122 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + address: + name: address + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The street name and building number where the sampling occurred. + title: address + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - address + rank: 62 + is_a: core field + string_serialization: '{integer}{text}' + slot_uri: MIXS:0000218 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + adj_room: + name: adj_room + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of rooms (room number, room name) immediately adjacent to the sampling room + title: adjacent rooms + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - adjacent rooms + rank: 63 + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000219 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + aero_struc: + name: aero_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Aerospace structures typically consist of thin plates with stiffeners for the external surfaces, bulkheads and frames to support the shape and fasteners such as welds, rivets, screws and bolts to hold the components together + title: aerospace structure + examples: + - value: plane + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aerospace structure + rank: 64 + is_a: core field + string_serialization: '[plane|glider]' + slot_uri: MIXS:0000773 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + air_temp: + name: air_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature of the air at the time of sampling + title: air temperature + examples: + - value: 20 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - air temperature + rank: 65 + is_a: core field + slot_uri: MIXS:0000124 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - altitude + rank: 26 + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + amount_light: + name: amount_light + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: lux, lumens per square meter + occurrence: + tag: occurrence + value: '1' + description: The unit of illuminance and luminous emittance, measuring luminous flux per unit area + title: amount of light + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount of light + rank: 66 + is_a: core field + slot_uri: MIXS:0000140 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + arch_struc: + name: arch_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: An architectural structure is a human-made, free-standing, immobile outdoor construction + title: architectural structure + examples: + - value: shed + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - architectural structure + rank: 67 + is_a: core field + slot_uri: MIXS:0000774 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: arch_struc_enum + avg_dew_point: + name: avg_dew_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The average of dew point measures taken at the beginning of every hour over a 24 hour period on the sampling day + title: average dew point + examples: + - value: 25.5 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - average dew point + rank: 68 + is_a: core field + slot_uri: MIXS:0000141 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + avg_occup: + name: avg_occup + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Daily average occupancy of room. Indicate the number of person(s) daily occupying the sampling room. + title: average daily occupancy + examples: + - value: '2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - average daily occupancy + rank: 69 + is_a: core field + slot_uri: MIXS:0000775 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + avg_temp: + name: avg_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The average of temperatures taken at the beginning of every hour over a 24 hour period on the sampling day + title: average temperature + examples: + - value: 12.5 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - average temperature + rank: 70 + is_a: core field + slot_uri: MIXS:0000142 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bathroom_count: + name: bathroom_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of bathrooms in the building + title: bathroom count + examples: + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bathroom count + rank: 71 + is_a: core field + slot_uri: MIXS:0000776 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + bedroom_count: + name: bedroom_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of bedrooms in the building + title: bedroom count + examples: + - value: '2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bedroom count + rank: 72 + is_a: core field + slot_uri: MIXS:0000777 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + build_docs: + name: build_docs + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building design, construction and operation documents + title: design, construction, and operation documents + examples: + - value: maintenance plans + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - design, construction, and operation documents + rank: 73 + is_a: core field + slot_uri: MIXS:0000787 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: build_docs_enum + build_occup_type: + name: build_occup_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: The primary function for which a building or discrete part of a building is intended to be used + title: building occupancy type + examples: + - value: market + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - building occupancy type + rank: 74 + is_a: core field + slot_uri: MIXS:0000761 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: build_occup_type_enum + building_setting: + name: building_setting + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A location (geography) where a building is set + title: building setting + examples: + - value: rural + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - building setting + rank: 75 + is_a: core field + slot_uri: MIXS:0000768 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: building_setting_enum + built_struc_age: + name: built_struc_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: year + occurrence: + tag: occurrence + value: '1' + description: The age of the built structure since construction + title: built structure age + examples: + - value: '15' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - built structure age + rank: 76 + is_a: core field + slot_uri: MIXS:0000145 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + built_struc_set: + name: built_struc_set + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The characterization of the location of the built structure as high or low human density + title: built structure setting + examples: + - value: rural + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - built structure setting + rank: 77 + is_a: core field + string_serialization: '[urban|rural]' + slot_uri: MIXS:0000778 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + built_struc_type: + name: built_struc_type + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: A physical structure that is a body or assemblage of bodies in space to form a system capable of supporting loads + title: built structure type + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - built structure type + rank: 78 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000721 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + carb_dioxide: + name: carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Carbon dioxide (gas) amount or concentration at the time of sampling + title: carbon dioxide + examples: + - value: 410 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon dioxide + rank: 50 + is_a: core field + slot_uri: MIXS:0000097 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ceil_area: + name: ceil_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The area of the ceiling space within the room + title: ceiling area + examples: + - value: 25 square meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling area + rank: 79 + is_a: core field + slot_uri: MIXS:0000148 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ceil_cond: + name: ceil_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the ceiling at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: ceiling condition + examples: + - value: damaged + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling condition + rank: 80 + is_a: core field + slot_uri: MIXS:0000779 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ceil_cond_enum + ceil_finish_mat: + name: ceil_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of material used to finish a ceiling + title: ceiling finish material + examples: + - value: stucco + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling finish material + rank: 81 + is_a: core field + slot_uri: MIXS:0000780 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ceil_finish_mat_enum + ceil_struc: + name: ceil_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The construction format of the ceiling + title: ceiling structure + examples: + - value: concrete + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling structure + rank: 82 + is_a: core field + string_serialization: '[wood frame|concrete]' + slot_uri: MIXS:0000782 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ceil_texture: + name: ceil_texture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The feel, appearance, or consistency of a ceiling surface + title: ceiling texture + examples: + - value: popcorn + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling texture + rank: 83 + is_a: core field + slot_uri: MIXS:0000783 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ceil_texture_enum + ceil_thermal_mass: + name: ceil_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the ceiling to provide inertia against temperature fluctuations. Generally this means concrete that is exposed. A metal deck that supports a concrete slab will act thermally as long as it is exposed to room air flow + title: ceiling thermal mass + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling thermal mass + rank: 84 + is_a: core field + slot_uri: MIXS:0000143 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ceil_type: + name: ceil_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of ceiling according to the ceiling's appearance or construction + title: ceiling type + examples: + - value: coffered + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling type + rank: 85 + is_a: core field + slot_uri: MIXS:0000784 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ceil_type_enum + ceil_water_mold: + name: ceil_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the ceiling + title: ceiling signs of water/mold + examples: + - value: presence of mold visible + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ceiling signs of water/mold + rank: 86 + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000781 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + cool_syst_id: + name: cool_syst_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: The cooling system identifier + title: cooling system identifier + examples: + - value: '12345' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - cooling system identifier + rank: 87 + is_a: core field + slot_uri: MIXS:0000785 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + date_last_rain: + name: date_last_rain + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: The date of the last time it rained + title: date last rain + examples: + - value: 2018-05-11:T14:30Z + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - date last rain + rank: 88 + is_a: core field + slot_uri: MIXS:0000786 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + dew_point: + name: dew_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The temperature to which a given parcel of humid air must be cooled, at constant barometric pressure, for water vapor to condense into water. + title: dew point + examples: + - value: 22 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dew point + rank: 89 + is_a: core field + slot_uri: MIXS:0000129 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + door_comp_type: + name: door_comp_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The composite type of the door + title: door type, composite + examples: + - value: revolving + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door type, composite + rank: 90 + is_a: core field + slot_uri: MIXS:0000795 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_comp_type_enum + door_cond: + name: door_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The phsical condition of the door + title: door condition + examples: + - value: new + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door condition + rank: 91 + is_a: core field + slot_uri: MIXS:0000788 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_cond_enum + door_direct: + name: door_direct + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The direction the door opens + title: door direction of opening + examples: + - value: inward + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door direction of opening + rank: 92 + is_a: core field + slot_uri: MIXS:0000789 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_direct_enum + door_loc: + name: door_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the door in the room + title: door location + examples: + - value: north + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door location + rank: 93 + is_a: core field + slot_uri: MIXS:0000790 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_loc_enum + door_mat: + name: door_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The material the door is composed of + title: door material + examples: + - value: wood + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door material + rank: 94 + is_a: core field + slot_uri: MIXS:0000791 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_mat_enum + door_move: + name: door_move + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of movement of the door + title: door movement + examples: + - value: swinging + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door movement + rank: 95 + is_a: core field + slot_uri: MIXS:0000792 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_move_enum + door_size: + name: door_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The size of the door + title: door area or size + examples: + - value: 2.5 square meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door area or size + rank: 96 + is_a: core field + slot_uri: MIXS:0000158 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + door_type: + name: door_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of door material + title: door type + examples: + - value: wooden + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door type + rank: 97 + is_a: core field + slot_uri: MIXS:0000794 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_type_enum + door_type_metal: + name: door_type_metal + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of metal door + title: door type, metal + examples: + - value: hollow + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door type, metal + rank: 98 + is_a: core field + slot_uri: MIXS:0000796 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_type_metal_enum + door_type_wood: + name: door_type_wood + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of wood door + title: door type, wood + examples: + - value: battened + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door type, wood + rank: 99 + is_a: core field + slot_uri: MIXS:0000797 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: door_type_wood_enum + door_water_mold: + name: door_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on a door + title: door signs of water/mold + examples: + - value: presence of mold visible + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - door signs of water/mold + rank: 100 + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000793 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + drawings: + name: drawings + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The buildings architectural drawings; if design is chosen, indicate phase-conceptual, schematic, design development, and construction documents + title: drawings + examples: + - value: sketch + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - drawings + rank: 101 + is_a: core field + slot_uri: MIXS:0000798 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: drawings_enum + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + elevator: + name: elevator + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of elevators within the built structure + title: elevator count + examples: + - value: '2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - elevator count + rank: 102 + is_a: core field + slot_uri: MIXS:0000799 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + escalator: + name: escalator + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of escalators within the built structure + title: escalator count + examples: + - value: '4' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - escalator count + rank: 103 + is_a: core field + slot_uri: MIXS:0000800 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + exp_duct: + name: exp_duct + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The amount of exposed ductwork in the room + title: exposed ductwork + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - exposed ductwork + rank: 104 + is_a: core field + slot_uri: MIXS:0000144 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + exp_pipe: + name: exp_pipe + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of exposed pipes in the room + title: exposed pipes + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - exposed pipes + rank: 105 + is_a: core field + slot_uri: MIXS:0000220 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + ext_door: + name: ext_door + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of exterior doors in the built structure + title: exterior door count + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - exterior door count + rank: 106 + is_a: core field + slot_uri: MIXS:0000170 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ext_wall_orient: + name: ext_wall_orient + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The orientation of the exterior wall + title: orientations of exterior wall + examples: + - value: northwest + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - orientations of exterior wall + rank: 107 + is_a: core field + slot_uri: MIXS:0000817 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ext_wall_orient_enum + ext_window_orient: + name: ext_window_orient + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The compass direction the exterior window of the room is facing + title: orientations of exterior window + examples: + - value: southwest + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - orientations of exterior window + rank: 108 + is_a: core field + slot_uri: MIXS:0000818 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: ext_window_orient_enum + filter_type: + name: filter_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: A device which removes solid particulates or airborne molecular contaminants + title: filter type + examples: + - value: HEPA + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - filter type + rank: 109 + is_a: core field + slot_uri: MIXS:0000765 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: filter_type_enum + fireplace_type: + name: fireplace_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A firebox with chimney + title: fireplace type + examples: + - value: wood burning + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - fireplace type + rank: 110 + is_a: core field + string_serialization: '[gas burning|wood burning]' + slot_uri: MIXS:0000802 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + floor_age: + name: floor_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: years, weeks, days + occurrence: + tag: occurrence + value: '1' + description: The time period since installment of the carpet or flooring + title: floor age + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor age + rank: 111 + is_a: core field + slot_uri: MIXS:0000164 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + floor_area: + name: floor_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The area of the floor space within the room + title: floor area + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor area + rank: 112 + is_a: core field + slot_uri: MIXS:0000165 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + floor_cond: + name: floor_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the floor at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: floor condition + examples: + - value: new + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor condition + rank: 113 + is_a: core field + slot_uri: MIXS:0000803 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: floor_cond_enum + floor_count: + name: floor_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of floors in the building, including basements and mechanical penthouse + title: floor count + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor count + rank: 114 + is_a: core field + slot_uri: MIXS:0000225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + floor_finish_mat: + name: floor_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The floor covering type; the finished surface that is walked on + title: floor finish material + examples: + - value: carpet + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor finish material + rank: 115 + is_a: core field + slot_uri: MIXS:0000804 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: floor_finish_mat_enum + floor_struc: + name: floor_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Refers to the structural elements and subfloor upon which the finish flooring is installed + title: floor structure + examples: + - value: concrete + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor structure + rank: 116 + is_a: core field + slot_uri: MIXS:0000806 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: floor_struc_enum + floor_thermal_mass: + name: floor_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the floor to provide inertia against temperature fluctuations + title: floor thermal mass + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor thermal mass + rank: 117 + is_a: core field + slot_uri: MIXS:0000166 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + floor_water_mold: + name: floor_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew in a room + title: floor signs of water/mold + examples: + - value: ceiling discoloration + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - floor signs of water/mold + rank: 118 + is_a: core field + slot_uri: MIXS:0000805 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: floor_water_mold_enum + freq_clean: + name: freq_clean + annotations: + expected_value: + tag: expected_value + value: enumeration or {text} + occurrence: + tag: occurrence + value: '1' + description: The number of times the sample location is cleaned. Frequency of cleaning might be on a Daily basis, Weekly, Monthly, Quarterly or Annually. + title: frequency of cleaning + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - frequency of cleaning + rank: 119 + is_a: core field + slot_uri: MIXS:0000226 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + freq_cook: + name: freq_cook + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of times a meal is cooked per week + title: frequency of cooking + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - frequency of cooking + rank: 120 + is_a: core field + slot_uri: MIXS:0000227 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + furniture: + name: furniture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The types of furniture present in the sampled room + title: furniture + examples: + - value: chair + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - furniture + rank: 121 + is_a: core field + slot_uri: MIXS:0000807 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: furniture_enum + gender_restroom: + name: gender_restroom + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The gender type of the restroom + title: gender of restroom + examples: + - value: male + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - gender of restroom + rank: 122 + is_a: core field + slot_uri: MIXS:0000808 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: gender_restroom_enum + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + hall_count: + name: hall_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The total count of hallways and cooridors in the built structure + title: hallway/corridor count + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hallway/corridor count + rank: 123 + is_a: core field + slot_uri: MIXS:0000228 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + handidness: + name: handidness + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The handidness of the individual sampled + title: handidness + examples: + - value: right handedness + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - handidness + rank: 124 + is_a: core field + slot_uri: MIXS:0000809 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: handidness_enum + heat_cool_type: + name: heat_cool_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Methods of conditioning or heating a room or building + title: heating and cooling system type + examples: + - value: heat pump + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - heating and cooling system type + rank: 125 + is_a: core field + slot_uri: MIXS:0000766 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: heat_cool_type_enum + heat_deliv_loc: + name: heat_deliv_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The location of heat delivery within the room + title: heating delivery locations + examples: + - value: north + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - heating delivery locations + rank: 126 + is_a: core field + slot_uri: MIXS:0000810 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: heat_deliv_loc_enum + heat_sys_deliv_meth: + name: heat_sys_deliv_meth + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The method by which the heat is delivered through the system + title: heating system delivery method + examples: + - value: radiant + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - heating system delivery method + rank: 127 + is_a: core field + string_serialization: '[conductive|radiant]' + slot_uri: MIXS:0000812 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + heat_system_id: + name: heat_system_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: The heating system identifier + title: heating system identifier + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - heating system identifier + rank: 128 + is_a: core field + slot_uri: MIXS:0000833 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + height_carper_fiber: + name: height_carper_fiber + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: centimeter + occurrence: + tag: occurrence + value: '1' + description: The average carpet fiber height in the indoor environment + title: height carpet fiber mat + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - height carpet fiber mat + rank: 129 + is_a: core field + slot_uri: MIXS:0000167 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + indoor_space: + name: indoor_space + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: A distinguishable space within a structure, the purpose for which discrete areas of a building is used + title: indoor space + examples: + - value: foyer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - indoor space + rank: 130 + is_a: core field + slot_uri: MIXS:0000763 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: indoor_space_enum + indoor_surf: + name: indoor_surf + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Type of indoor surface + title: indoor surface + examples: + - value: wall + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - indoor surface + rank: 131 + is_a: core field + slot_uri: MIXS:0000764 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: indoor_surf_enum + inside_lux: + name: inside_lux + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilowatt per square metre + occurrence: + tag: occurrence + value: '1' + description: The recorded value at sampling time (power density) + title: inside lux light + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - inside lux light + rank: 132 + is_a: core field + slot_uri: MIXS:0000168 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + int_wall_cond: + name: int_wall_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the wall at the time of sampling; photos or video preferred; use drawings to indicate location of damaged areas + title: interior wall condition + examples: + - value: damaged + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - interior wall condition + rank: 133 + is_a: core field + slot_uri: MIXS:0000813 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: int_wall_cond_enum + last_clean: + name: last_clean + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: The last time the floor was cleaned (swept, mopped, vacuumed) + title: last time swept/mopped/vacuumed + examples: + - value: 2018-05-11:T14:30Z + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - last time swept/mopped/vacuumed + rank: 134 + is_a: core field + slot_uri: MIXS:0000814 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + light_type: + name: light_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Application of light to achieve some practical or aesthetic effect. Lighting includes the use of both artificial light sources such as lamps and light fixtures, as well as natural illumination by capturing daylight. Can also include absence of light + title: light type + examples: + - value: desk lamp + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - light type + rank: 135 + is_a: core field + slot_uri: MIXS:0000769 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: light_type_enum + max_occup: + name: max_occup + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The maximum amount of people allowed in the indoor environment + title: maximum occupancy + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - maximum occupancy + rank: 136 + is_a: core field + slot_uri: MIXS:0000229 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mech_struc: + name: mech_struc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'mechanical structure: a moving structure' + title: mechanical structure + examples: + - value: elevator + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mechanical structure + rank: 137 + is_a: core field + slot_uri: MIXS:0000815 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: mech_struc_enum + number_pets: + name: number_pets + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of pets residing in the sampled space + title: number of pets + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - number of pets + rank: 138 + is_a: core field + slot_uri: MIXS:0000231 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + number_plants: + name: number_plants + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of plant(s) in the sampling space + title: number of houseplants + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - number of houseplants + rank: 139 + is_a: core field + slot_uri: MIXS:0000230 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + number_resident: + name: number_resident + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The number of individuals currently occupying in the sampling location + title: number of residents + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - number of residents + rank: 140 + is_a: core field + slot_uri: MIXS:0000232 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + occup_density_samp: + name: occup_density_samp + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Average number of occupants at time of sampling per square footage + title: occupant density at sampling + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - occupant density at sampling + rank: 141 + is_a: core field + slot_uri: MIXS:0000217 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + occup_document: + name: occup_document + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of documentation of occupancy + title: occupancy documentation + examples: + - value: estimate + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - occupancy documentation + rank: 142 + is_a: core field + slot_uri: MIXS:0000816 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: occup_document_enum + occup_samp: + name: occup_samp + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Number of occupants present at time of sample within the given space + title: occupancy at sampling + examples: + - value: '10' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - occupancy at sampling + rank: 143 + is_a: core field + slot_uri: MIXS:0000772 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + pres_animal_insect: + name: pres_animal_insect + annotations: + expected_value: + tag: expected_value + value: enumeration;count + occurrence: + tag: occurrence + value: '1' + description: The type and number of animals or insects present in the sampling space. + title: presence of pets, animals, or insects + examples: + - value: cat;5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - presence of pets, animals, or insects + rank: 144 + is_a: core field + slot_uri: MIXS:0000819 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^(cat|dog|rodent|snake|other);\d+$ + quad_pos: + name: quad_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The quadrant position of the sampling room within the building + title: quadrant position + examples: + - value: West side + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - quadrant position + rank: 145 + is_a: core field + slot_uri: MIXS:0000820 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: quad_pos_enum + rel_air_humidity: + name: rel_air_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Partial vapor and air pressure, density of the vapor and air, or by the actual mass of the vapor and air + title: relative air humidity + examples: + - value: 80% + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - relative air humidity + rank: 146 + is_a: core field + slot_uri: MIXS:0000121 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + rel_humidity_out: + name: rel_humidity_out + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram of air, kilogram of air + occurrence: + tag: occurrence + value: '1' + description: The recorded outside relative humidity value at the time of sampling + title: outside relative humidity + examples: + - value: 12 per kilogram of air + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - outside relative humidity + rank: 147 + is_a: core field + slot_uri: MIXS:0000188 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + rel_samp_loc: + name: rel_samp_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The sampling location within the train car + title: relative sampling location + examples: + - value: center of car + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - relative sampling location + rank: 148 + is_a: core field + slot_uri: MIXS:0000821 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: rel_samp_loc_enum + room_air_exch_rate: + name: room_air_exch_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: liter per hour + occurrence: + tag: occurrence + value: '1' + description: The rate at which outside air replaces indoor air in a given space + title: room air exchange rate + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room air exchange rate + rank: 149 + is_a: core field + slot_uri: MIXS:0000169 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + room_architec_elem: + name: room_architec_elem + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: The unique details and component parts that, together, form the architecture of a distinguisahable space within a built structure + title: room architectural elements + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room architectural elements + rank: 150 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000233 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_condt: + name: room_condt + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The condition of the room at the time of sampling + title: room condition + examples: + - value: new + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room condition + rank: 151 + is_a: core field + slot_uri: MIXS:0000822 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: room_condt_enum + room_connected: + name: room_connected + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: List of rooms connected to the sampling room by a doorway + title: rooms connected by a doorway + examples: + - value: office + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooms connected by a doorway + rank: 152 + is_a: core field + slot_uri: MIXS:0000826 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: room_connected_enum + room_count: + name: room_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The total count of rooms in the built structure including all room types + title: room count + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room count + rank: 153 + is_a: core field + slot_uri: MIXS:0000234 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_dim: + name: room_dim + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: The length, width and height of sampling room + title: room dimensions + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room dimensions + rank: 154 + is_a: core field + string_serialization: '{integer} {unit} x {integer} {unit} x {integer} {unit}' + slot_uri: MIXS:0000192 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_door_dist: + name: room_door_dist + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Distance between doors (meters) in the hallway between the sampling room and adjacent rooms + title: room door distance + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room door distance + rank: 155 + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000193 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_door_share: + name: room_door_share + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) sharing a door with the sampling room + title: rooms that share a door with sampling room + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooms that share a door with sampling room + rank: 156 + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000242 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_hallway: + name: room_hallway + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) located in the same hallway as sampling room + title: rooms that are on the same hallway + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooms that are on the same hallway + rank: 157 + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000238 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_loc: + name: room_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The position of the room within the building + title: room location in building + examples: + - value: interior room + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room location in building + rank: 158 + is_a: core field + slot_uri: MIXS:0000823 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: room_loc_enum + room_moist_dam_hist: + name: room_moist_dam_hist + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The history of moisture damage or mold in the past 12 months. Number of events of moisture damage or mold observed + title: room moisture damage or mold history + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room moisture damage or mold history + rank: 159 + is_a: core field + slot_uri: MIXS:0000235 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: integer + room_net_area: + name: room_net_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square feet, square meter + occurrence: + tag: occurrence + value: '1' + description: The net floor area of sampling room. Net area excludes wall thicknesses + title: room net area + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room net area + rank: 160 + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000194 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_occup: + name: room_occup + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Count of room occupancy at time of sampling + title: room occupancy + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room occupancy + rank: 161 + is_a: core field + slot_uri: MIXS:0000236 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + room_samp_pos: + name: room_samp_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The horizontal sampling position in the room relative to architectural elements + title: room sampling position + examples: + - value: south corner + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room sampling position + rank: 162 + is_a: core field + slot_uri: MIXS:0000824 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: room_samp_pos_enum + room_type: + name: room_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The main purpose or activity of the sampling room. A room is any distinguishable space within a structure + title: room type + examples: + - value: bathroom + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room type + rank: 163 + is_a: core field + slot_uri: MIXS:0000825 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: room_type_enum + room_vol: + name: room_vol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic feet, cubic meter + occurrence: + tag: occurrence + value: '1' + description: Volume of sampling room + title: room volume + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room volume + rank: 164 + is_a: core field + string_serialization: '{integer} {unit}' + slot_uri: MIXS:0000195 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_wall_share: + name: room_wall_share + annotations: + expected_value: + tag: expected_value + value: room name;room number + occurrence: + tag: occurrence + value: '1' + description: List of room(s) (room number, room name) sharing a wall with the sampling room + title: rooms that share a wall with sampling room + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooms that share a wall with sampling room + rank: 165 + is_a: core field + string_serialization: '{text};{integer}' + slot_uri: MIXS:0000243 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + room_window_count: + name: room_window_count + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Number of windows in the room + title: room window count + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - room window count + rank: 166 + is_a: core field + slot_uri: MIXS:0000237 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: integer + samp_floor: + name: samp_floor + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The floor of the building, where the sampling room is located + title: sampling floor + examples: + - value: 4th floor + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sampling floor + rank: 167 + is_a: core field + slot_uri: MIXS:0000828 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_floor_enum + samp_room_id: + name: samp_room_id + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: Sampling room number. This ID should be consistent with the designations on the building floor plans + title: sampling room ID or name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sampling room ID or name + rank: 168 + is_a: core field + slot_uri: MIXS:0000244 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_sort_meth: + name: samp_sort_meth + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: m + description: Method by which samples are sorted; open face filter collecting total suspended particles, prefilter to remove particles larger than X micrometers in diameter, where common values of X would be 10 and 2.5 full size sorting in a cascade impactor. + title: sample size sorting method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample size sorting method + rank: 169 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000216 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_time_out: + name: samp_time_out + annotations: + expected_value: + tag: expected_value + value: time + preferred_unit: + tag: preferred_unit + value: hour + occurrence: + tag: occurrence + value: '1' + description: The recent and long term history of outside sampling + title: sampling time outside + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sampling time outside + rank: 170 + is_a: core field + slot_uri: MIXS:0000196 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_weather: + name: samp_weather + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The weather on the sampling day + title: sampling day weather + examples: + - value: foggy + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sampling day weather + rank: 171 + is_a: core field + slot_uri: MIXS:0000827 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_weather_enum + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + season: + name: season + annotations: + expected_value: + tag: expected_value + value: NCIT:C94729 + occurrence: + tag: occurrence + value: '1' + description: The season when sampling occurred. Any of the four periods into which the year is divided by the equinoxes and solstices. This field accepts terms listed under season (http://purl.obolibrary.org/obo/NCIT_C94729). + title: season + examples: + - value: autumn [NCIT:C94733] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - season + rank: 172 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000829 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + season_use: + name: season_use + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The seasons the space is occupied + title: seasonal use + examples: + - value: Winter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - seasonal use + rank: 173 + is_a: core field + slot_uri: MIXS:0000830 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: season_use_enum + shad_dev_water_mold: + name: shad_dev_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the shading device + title: shading device signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - shading device signs of water/mold + rank: 174 + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000834 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + shading_device_cond: + name: shading_device_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the shading device at the time of sampling + title: shading device condition + examples: + - value: new + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - shading device condition + rank: 175 + is_a: core field + slot_uri: MIXS:0000831 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: shading_device_cond_enum + shading_device_loc: + name: shading_device_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The location of the shading device in relation to the built structure + title: shading device location + examples: + - value: exterior + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - shading device location + rank: 176 + is_a: core field + string_serialization: '[exterior|interior]' + slot_uri: MIXS:0000832 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + shading_device_mat: + name: shading_device_mat + annotations: + expected_value: + tag: expected_value + value: material name + occurrence: + tag: occurrence + value: '1' + description: The material the shading device is composed of + title: shading device material + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - shading device material + rank: 177 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000245 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + shading_device_type: + name: shading_device_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of shading device + title: shading device type + examples: + - value: slatted aluminum awning + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - shading device type + rank: 178 + is_a: core field + slot_uri: MIXS:0000835 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: shading_device_type_enum + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + space_typ_state: + name: space_typ_state + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Customary or normal state of the space + title: space typical state + examples: + - value: typically occupied + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - space typical state + rank: 179 + is_a: core field + string_serialization: '[typically occupied|typically unoccupied]' + slot_uri: MIXS:0000770 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + specific: + name: specific + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'The building specifications. If design is chosen, indicate phase: conceptual, schematic, design development, construction documents' + title: specifications + examples: + - value: construction + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - specifications + rank: 180 + is_a: core field + slot_uri: MIXS:0000836 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: specific_enum + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + specific_humidity: + name: specific_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram of air, kilogram of air + occurrence: + tag: occurrence + value: '1' + description: The mass of water vapour in a unit mass of moist air, usually expressed as grams of vapour per kilogram of air, or, in air conditioning, as grains per pound. + title: specific humidity + examples: + - value: 15 per kilogram of air + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - specific humidity + rank: 181 + is_a: core field + slot_uri: MIXS:0000214 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + substructure_type: + name: substructure_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: The substructure or under building is that largely hidden section of the building which is built off the foundations to the ground floor level + title: substructure type + examples: + - value: basement + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - substructure type + rank: 182 + is_a: core field + slot_uri: MIXS:0000767 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: substructure_type_enum + surf_air_cont: + name: surf_air_cont + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Contaminant identified on surface + title: surface-air contaminant + examples: + - value: radon + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface-air contaminant + rank: 183 + is_a: core field + slot_uri: MIXS:0000759 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: surf_air_cont_enum + surf_humidity: + name: surf_humidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: 'Surfaces: water activity as a function of air and material moisture' + title: surface humidity + examples: + - value: 10% + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface humidity + rank: 184 + is_a: core field + slot_uri: MIXS:0000123 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + surf_material: + name: surf_material + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Surface materials at the point of sampling + title: surface material + examples: + - value: wood + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface material + rank: 185 + is_a: core field + slot_uri: MIXS:0000758 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: surf_material_enum + surf_moisture: + name: surf_moisture + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million, gram per cubic meter, gram per square meter + occurrence: + tag: occurrence + value: '1' + description: Water held on a surface + title: surface moisture + examples: + - value: 0.01 gram per square meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface moisture + rank: 186 + is_a: core field + slot_uri: MIXS:0000128 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + surf_moisture_ph: + name: surf_moisture_ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: ph measurement of surface + title: surface moisture pH + examples: + - value: '7' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface moisture pH + rank: 187 + is_a: core field + slot_uri: MIXS:0000760 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: double + surf_temp: + name: surf_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature of the surface at the time of sampling + title: surface temperature + examples: + - value: 15 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - surface temperature + rank: 188 + is_a: core field + slot_uri: MIXS:0000125 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp_out: + name: temp_out + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The recorded temperature value at sampling time outside + title: temperature outside house + examples: + - value: 5 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature outside house + rank: 189 + is_a: core field + slot_uri: MIXS:0000197 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + train_line: + name: train_line + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The subway line name + title: train line + examples: + - value: red + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - train line + rank: 190 + is_a: core field + slot_uri: MIXS:0000837 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: train_line_enum + train_stat_loc: + name: train_stat_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The train station collection location + title: train station collection location + examples: + - value: forest hills + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - train station collection location + rank: 191 + is_a: core field + slot_uri: MIXS:0000838 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: train_stat_loc_enum + train_stop_loc: + name: train_stop_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The train stop collection location + title: train stop collection location + examples: + - value: end + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - train stop collection location + rank: 192 + is_a: core field + slot_uri: MIXS:0000839 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: train_stop_loc_enum + typ_occup_density: + name: typ_occup_density + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Customary or normal density of occupants + title: typical occupant density + examples: + - value: '25' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - typical occupant density + rank: 193 + is_a: core field + slot_uri: MIXS:0000771 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: double + ventilation_type: + name: ventilation_type + annotations: + expected_value: + tag: expected_value + value: ventilation type name + occurrence: + tag: occurrence + value: '1' + description: Ventilation system used in the sampled premises + title: ventilation type + examples: + - value: Operable windows + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ventilation type + rank: 57 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000756 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + vis_media: + name: vis_media + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building visual media + title: visual media + examples: + - value: 3D scans + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - visual media + rank: 194 + is_a: core field + slot_uri: MIXS:0000840 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: vis_media_enum + wall_area: + name: wall_area + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The total area of the sampled room's walls + title: wall area + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall area + rank: 195 + is_a: core field + slot_uri: MIXS:0000198 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + wall_const_type: + name: wall_const_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The building class of the wall defined by the composition of the building elements and fire-resistance rating. + title: wall construction type + examples: + - value: fire resistive + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall construction type + rank: 196 + is_a: core field + slot_uri: MIXS:0000841 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: wall_const_type_enum + wall_finish_mat: + name: wall_finish_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The material utilized to finish the outer most layer of the wall + title: wall finish material + examples: + - value: wood + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall finish material + rank: 197 + is_a: core field + slot_uri: MIXS:0000842 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: wall_finish_mat_enum + wall_height: + name: wall_height + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: centimeter + occurrence: + tag: occurrence + value: '1' + description: The average height of the walls in the sampled room + title: wall height + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall height + rank: 198 + is_a: core field + slot_uri: MIXS:0000221 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + wall_loc: + name: wall_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the wall within the room + title: wall location + examples: + - value: north + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall location + rank: 199 + is_a: core field + slot_uri: MIXS:0000843 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: wall_loc_enum + wall_surf_treatment: + name: wall_surf_treatment + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The surface treatment of interior wall + title: wall surface treatment + examples: + - value: paneling + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall surface treatment + rank: 200 + is_a: core field + slot_uri: MIXS:0000845 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: wall_surf_treatment_enum + wall_texture: + name: wall_texture + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The feel, appearance, or consistency of a wall surface + title: wall texture + examples: + - value: popcorn + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall texture + rank: 201 + is_a: core field + slot_uri: MIXS:0000846 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: wall_texture_enum + wall_thermal_mass: + name: wall_thermal_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: joule per degree Celsius + occurrence: + tag: occurrence + value: '1' + description: The ability of the wall to provide inertia against temperature fluctuations. Generally this means concrete or concrete block that is either exposed or covered only with paint + title: wall thermal mass + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall thermal mass + rank: 202 + is_a: core field + slot_uri: MIXS:0000222 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + wall_water_mold: + name: wall_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on a wall + title: wall signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wall signs of water/mold + rank: 203 + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000844 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + water_feat_size: + name: water_feat_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: square meter + occurrence: + tag: occurrence + value: '1' + description: The size of the water feature + title: water feature size + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water feature size + rank: 204 + is_a: core field + slot_uri: MIXS:0000223 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_feat_type: + name: water_feat_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of water feature present within the building being sampled + title: water feature type + examples: + - value: stream + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water feature type + rank: 205 + is_a: core field + slot_uri: MIXS:0000847 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: water_feat_type_enum + weekday: + name: weekday + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The day of the week when sampling occurred + title: weekday + examples: + - value: Sunday + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - weekday + rank: 206 + is_a: core field + slot_uri: MIXS:0000848 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: weekday_enum + window_cond: + name: window_cond + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The physical condition of the window at the time of sampling + title: window condition + examples: + - value: rupture + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window condition + rank: 207 + is_a: core field + slot_uri: MIXS:0000849 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_cond_enum + window_cover: + name: window_cover + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of window covering + title: window covering + examples: + - value: curtains + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window covering + rank: 208 + is_a: core field + slot_uri: MIXS:0000850 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_cover_enum + window_horiz_pos: + name: window_horiz_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The horizontal position of the window on the wall + title: window horizontal position + examples: + - value: middle + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window horizontal position + rank: 209 + is_a: core field + slot_uri: MIXS:0000851 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_horiz_pos_enum + window_loc: + name: window_loc + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The relative location of the window within the room + title: window location + examples: + - value: west + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window location + rank: 210 + is_a: core field + slot_uri: MIXS:0000852 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_loc_enum + window_mat: + name: window_mat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of material used to finish a window + title: window material + examples: + - value: wood + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window material + rank: 211 + is_a: core field + slot_uri: MIXS:0000853 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_mat_enum + window_open_freq: + name: window_open_freq + annotations: + expected_value: + tag: expected_value + value: value + occurrence: + tag: occurrence + value: '1' + description: The number of times windows are opened per week + title: window open frequency + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window open frequency + rank: 212 + is_a: core field + slot_uri: MIXS:0000246 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + window_size: + name: window_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: inch, meter + occurrence: + tag: occurrence + value: '1' + description: The window's length and width + title: window area/size + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window area/size + rank: 213 + is_a: core field + string_serialization: '{float} {unit} x {float} {unit}' + slot_uri: MIXS:0000224 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + window_status: + name: window_status + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Defines whether the windows were open or closed during environmental testing + title: window status + examples: + - value: open + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window status + rank: 214 + is_a: core field + string_serialization: '[closed|open]' + slot_uri: MIXS:0000855 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + window_type: + name: window_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The type of windows + title: window type + examples: + - value: fixed window + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window type + rank: 215 + is_a: core field + slot_uri: MIXS:0000856 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_type_enum + window_vert_pos: + name: window_vert_pos + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The vertical position of the window on the wall + title: window vertical position + examples: + - value: middle + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window vertical position + rank: 216 + is_a: core field + slot_uri: MIXS:0000857 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: window_vert_pos_enum + window_water_mold: + name: window_water_mold + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Signs of the presence of mold or mildew on the window. + title: window signs of water/mold + examples: + - value: no presence of mold visible + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - window signs of water/mold + rank: 217 + is_a: core field + string_serialization: '[presence of mold visible|no presence of mold visible]' + slot_uri: MIXS:0000854 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + oxy_stat_samp: + name: oxy_stat_samp + range: OxyStatSampEnum + EmslInterface: + name: EmslInterface + description: emsl dh_interface + title: Emsl + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - emsl_store_temp + - project_id + - replicate_number + - sample_shipped + - sample_type + - technical_reps + - emsl_store_temp + - project_id + - replicate_number + - sample_shipped + - sample_type + - technical_reps + slot_usage: + emsl_store_temp: + name: emsl_store_temp + description: The temperature at which the sample should be stored upon delivery to EMSL + title: EMSL sample storage temperature, deg. C + todos: + - add 'see_alsos' with link to NEXUS info + comments: + - Enter a temperature in celsius. Numeric portion only. + examples: + - value: '-80' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 4 + string_serialization: '{float}' + owner: Biosample + slot_group: emsl_section + range: float + required: true + recommended: true + project_id: + name: project_id + description: Proposal IDs or names associated with dataset + title: project ID + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 1 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: emsl_section + range: string + required: true + recommended: true + multivalued: false + replicate_number: + name: replicate_number + description: If sending biological replicates, indicate the rep number here. + title: replicate number + comments: + - This will guide staff in ensuring your samples are block & randomized correctly + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + string_serialization: '{integer}' + owner: Biosample + domain_of: + - Biosample + slot_group: emsl_section + range: integer + recommended: true + sample_shipped: + name: sample_shipped + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample sent to EMSL. + title: sample shipped amount + comments: + - This field is only required when completing metadata for samples being submitted to EMSL for analyses. + examples: + - value: 15 g + - value: 100 uL + - value: 5 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 3 + string_serialization: '{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: emsl_section + range: string + required: true + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + multivalued: false + sample_type: + name: sample_type + description: Type of sample being submitted + title: sample type + comments: + - This can vary from 'environmental package' if the sample is an extraction. + examples: + - value: water extracted soil + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 2 + owner: Biosample + domain_of: + - Biosample + slot_group: emsl_section + range: sample_type_enum + required: true + recommended: true + technical_reps: + name: technical_reps + description: If sending technical replicates of the same sample, indicate the replicate count. + title: number technical replicate + comments: + - This field is only required when completing metadata for samples being submitted to EMSL for analyses. + examples: + - value: '2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{integer}' + owner: Biosample + domain_of: + - Biosample + slot_group: emsl_section + range: integer + recommended: true + oxy_stat_samp: + name: oxy_stat_samp + range: OxyStatSampEnum + HcrCoresInterface: + name: HcrCoresInterface + description: hcr_cores dh_interface + title: Hcr Cores + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - additional_info + - alkalinity + - alkalinity_method + - ammonium + - api + - aromatics_pc + - asphaltenes_pc + - basin + - benzene + - calcium + - chem_administration + - chloride + - collection_date + - density + - depos_env + - depth + - diss_carb_dioxide + - diss_inorg_carb + - diss_inorg_phosp + - diss_iron + - diss_org_carb + - diss_oxygen_fluid + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - ethylbenzene + - experimental_factor + - field + - geo_loc_name + - hc_produced + - hcr + - hcr_fw_salinity + - hcr_geol_age + - hcr_pressure + - hcr_temp + - horizon_meth + - lat_lon + - lithology + - magnesium + - misc_param + - nitrate + - nitrite + - org_count_qpcr_info + - organism_count + - owc_tvdss + - oxy_stat_samp + - permeability + - ph + - ph_meth + - porosity + - potassium + - pour_point + - pressure + - reservoir + - resins_pc + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_md + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - samp_subtype + - samp_transport_cond + - samp_tvdss + - samp_type + - samp_well_name + - sample_link + - saturates_pc + - size_frac + - sodium + - specific_ecosystem + - sr_dep_env + - sr_geol_age + - sr_kerog_type + - sr_lithology + - sulfate + - sulfate_fw + - sulfide + - suspend_solids + - tan + - temp + - toluene + - tot_iron + - tot_nitro + - tot_phosp + - tot_sulfur + - tvdss_of_hcr_press + - tvdss_of_hcr_temp + - vfa + - vfa_fw + - viscosity + - win + - xylene + slot_usage: + additional_info: + name: additional_info + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary + title: additional info + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - additional info + rank: 290 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000300 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alkalinity_method: + name: alkalinity_method + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: '1' + description: Method used for alkalinity measurement + title: alkalinity method + examples: + - value: titration + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity method + rank: 218 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000298 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + api: + name: api + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degrees API + occurrence: + tag: occurrence + value: '1' + description: 'API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)' + title: API gravity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - API gravity + rank: 291 + is_a: core field + slot_uri: MIXS:0000157 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + aromatics_pc: + name: aromatics_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: aromatics wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aromatics wt% + rank: 292 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000133 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + asphaltenes_pc: + name: asphaltenes_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: asphaltenes wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - asphaltenes wt% + rank: 293 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000135 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + basin: + name: basin + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the basin (e.g. Campos) + title: basin name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - basin name + rank: 294 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000290 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + benzene: + name: benzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of benzene in the sample + title: benzene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - benzene + rank: 295 + is_a: core field + slot_uri: MIXS:0000153 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - density + rank: 12 + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + depos_env: + name: depos_env + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If "other" is specified, please propose entry in "additional info" field + title: depositional environment + examples: + - value: Continental - Alluvial + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depositional environment + rank: 304 + is_a: core field + slot_uri: MIXS:0000992 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: depos_env_enum + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_phosp: + name: diss_inorg_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic phosphorus in the sample + title: dissolved inorganic phosphorus + examples: + - value: 56.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic phosphorus + rank: 224 + is_a: core field + slot_uri: MIXS:0000106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_iron: + name: diss_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved iron in the sample + title: dissolved iron + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved iron + rank: 305 + is_a: core field + slot_uri: MIXS:0000139 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic carbon + rank: 17 + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen_fluid: + name: diss_oxygen_fluid + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic). + title: dissolved oxygen in fluids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen in fluids + rank: 306 + is_a: core field + slot_uri: MIXS:0000438 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + ethylbenzene: + name: ethylbenzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ethylbenzene in the sample + title: ethylbenzene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ethylbenzene + rank: 309 + is_a: core field + slot_uri: MIXS:0000155 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + field: + name: field + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the hydrocarbon field (e.g. Albacora) + title: field name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - field name + rank: 310 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000291 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + hc_produced: + name: hc_produced + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon type produced + examples: + - value: Gas + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon type produced + rank: 313 + is_a: core field + slot_uri: MIXS:0000989 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hc_produced_enum + hcr: + name: hcr + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main Hydrocarbon Resource type. The term "Hydrocarbon Resource" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon resource type + examples: + - value: Oil Sand + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource type + rank: 314 + is_a: core field + slot_uri: MIXS:0000988 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hcr_enum + hcr_fw_salinity: + name: hcr_fw_salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS + title: formation water salinity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - formation water salinity + rank: 315 + is_a: core field + slot_uri: MIXS:0000406 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + hcr_geol_age: + name: hcr_geol_age + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If "other" is specified, please propose entry in "additional info" field' + title: hydrocarbon resource geological age + examples: + - value: Silurian + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource geological age + rank: 316 + is_a: core field + slot_uri: MIXS:0000993 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hcr_geol_age_enum + hcr_pressure: + name: hcr_pressure + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: atmosphere, kilopascal + occurrence: + tag: occurrence + value: '1' + description: Original pressure of the hydrocarbon resource + title: hydrocarbon resource original pressure + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource original pressure + rank: 317 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000395 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + hcr_temp: + name: hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Original temperature of the hydrocarbon resource + title: hydrocarbon resource original temperature + examples: + - value: 150-295 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource original temperature + rank: 318 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000393 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + lithology: + name: lithology + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If "other" is specified, please propose entry in "additional info" field' + title: lithology + examples: + - value: Volcanic + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - lithology + rank: 336 + is_a: core field + slot_uri: MIXS:0000990 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: lithology_enum + magnesium: + name: magnesium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter, parts per million, micromole per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of magnesium in the sample + title: magnesium + examples: + - value: 52.8 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - magnesium + rank: 21 + is_a: core field + slot_uri: MIXS:0000431 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_count_qpcr_info: + name: org_count_qpcr_info + annotations: + expected_value: + tag: expected_value + value: gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles + preferred_unit: + tag: preferred_unit + value: number of cells per gram (or ml or cm^2) + occurrence: + tag: occurrence + value: '1' + description: 'If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)' + title: organism count qPCR information + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count qPCR information + rank: 337 + is_a: core field + string_serialization: '{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles' + slot_uri: MIXS:0000099 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + owc_tvdss: + name: owc_tvdss + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Depth of the original oil water contact (OWC) zone (average) (m TVDSS) + title: oil water contact depth + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - oil water contact depth + rank: 339 + is_a: core field + slot_uri: MIXS:0000405 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + permeability: + name: permeability + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: mD + occurrence: + tag: occurrence + value: '1' + description: 'Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. (Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences))' + title: permeability + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - permeability + rank: 340 + is_a: core field + string_serialization: '{integer} - {integer} {unit}' + slot_uri: MIXS:0000404 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + porosity: + name: porosity + annotations: + expected_value: + tag: expected_value + value: measurement value or range + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Porosity of deposited sediment is volume of voids divided by the total volume of sample + title: porosity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - porosity + rank: 37 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000211 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pour_point: + name: pour_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: 'Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)' + title: pour point + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pour point + rank: 341 + is_a: core field + slot_uri: MIXS:0000127 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + reservoir: + name: reservoir + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the reservoir (e.g. Carapebus) + title: reservoir name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - reservoir name + rank: 347 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000303 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + resins_pc: + name: resins_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: resins wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - resins wt% + rank: 348 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000134 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_md: + name: samp_md + annotations: + expected_value: + tag: expected_value + value: measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If "other" is specified, please propose entry in "additional info" field + title: sample measured depth + examples: + - value: 1534 meter;MSL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample measured depth + rank: 351 + is_a: core field + slot_uri: MIXS:0000413 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_subtype: + name: samp_subtype + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Name of sample sub-type. For example if "sample type" is "Produced Water" then subtype could be "Oil Phase" or "Water Phase". If "other" is specified, please propose entry in "additional info" field + title: sample subtype + examples: + - value: biofilm + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample subtype + rank: 354 + is_a: core field + slot_uri: MIXS:0000999 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_subtype_enum + samp_transport_cond: + name: samp_transport_cond + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: days;degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C) + title: sample transport conditions + examples: + - value: 5 days;-20 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample transport conditions + rank: 355 + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000410 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_tvdss: + name: samp_tvdss + annotations: + expected_value: + tag: expected_value + value: measurement value or measurement value range + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g. 1325.75-1362.25 m + title: sample true vertical depth subsea + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample true vertical depth subsea + rank: 356 + is_a: core field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000409 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_type: + name: samp_type + annotations: + expected_value: + tag: expected_value + value: GENEPIO:0001246 + occurrence: + tag: occurrence + value: '1' + description: The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246). + title: sample type + examples: + - value: built environment sample [GENEPIO:0001248] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample type + rank: 357 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000998 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + samp_well_name: + name: samp_well_name + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the well (e.g. BXA1123) where sample was taken + title: sample well name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample well name + rank: 358 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000296 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + saturates_pc: + name: saturates_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: saturates wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - saturates wt% + rank: 359 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000131 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sr_dep_env: + name: sr_dep_env + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock). If "other" is specified, please propose entry in "additional info" field + title: source rock depositional environment + examples: + - value: Marine + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - source rock depositional environment + rank: 366 + is_a: core field + slot_uri: MIXS:0000996 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: sr_dep_env_enum + sr_geol_age: + name: sr_geol_age + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If "other" is specified, please propose entry in "additional info" field' + title: source rock geological age + examples: + - value: Silurian + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - source rock geological age + rank: 367 + is_a: core field + slot_uri: MIXS:0000997 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: sr_geol_age_enum + sr_kerog_type: + name: sr_kerog_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen). If "other" is specified, please propose entry in "additional info" field' + title: source rock kerogen type + examples: + - value: Type IV + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - source rock kerogen type + rank: 368 + is_a: core field + slot_uri: MIXS:0000994 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: sr_kerog_type_enum + sr_lithology: + name: sr_lithology + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock). If "other" is specified, please propose entry in "additional info" field + title: source rock lithology + examples: + - value: Coal + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - source rock lithology + rank: 369 + is_a: core field + slot_uri: MIXS:0000995 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: sr_lithology_enum + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfate_fw: + name: sulfate_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original sulfate concentration in the hydrocarbon resource + title: sulfate in formation water + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate in formation water + rank: 370 + is_a: core field + slot_uri: MIXS:0000407 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + suspend_solids: + name: suspend_solids + annotations: + expected_value: + tag: expected_value + value: suspended solid name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, milligram per liter, mole per liter, gram per liter, part per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances + title: suspended solids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - suspended solids + rank: 372 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000150 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + tan: + name: tan + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)' + title: total acid number + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total acid number + rank: 373 + is_a: core field + slot_uri: MIXS:0000120 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + toluene: + name: toluene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of toluene in the sample + title: toluene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - toluene + rank: 375 + is_a: core field + slot_uri: MIXS:0000154 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_iron: + name: tot_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, milligram per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of total iron in the sample + title: total iron + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total iron + rank: 376 + is_a: core field + slot_uri: MIXS:0000105 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro: + name: tot_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen' + title: total nitrogen concentration + examples: + - value: 50 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total nitrogen concentration + rank: 377 + is_a: core field + slot_uri: MIXS:0000102 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_phosp: + name: tot_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: 'Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus' + title: total phosphorus + examples: + - value: 0.03 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total phosphorus + rank: 52 + is_a: core field + slot_uri: MIXS:0000117 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_sulfur: + name: tot_sulfur + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of total sulfur in the sample + title: total sulfur + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total sulfur + rank: 379 + is_a: core field + slot_uri: MIXS:0000419 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tvdss_of_hcr_press: + name: tvdss_of_hcr_press + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m). + title: depth (TVDSS) of hydrocarbon resource pressure + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth (TVDSS) of hydrocarbon resource pressure + rank: 380 + is_a: core field + slot_uri: MIXS:0000397 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tvdss_of_hcr_temp: + name: tvdss_of_hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m). + title: depth (TVDSS) of hydrocarbon resource temperature + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth (TVDSS) of hydrocarbon resource temperature + rank: 381 + is_a: core field + slot_uri: MIXS:0000394 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + vfa: + name: vfa + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of Volatile Fatty Acids in the sample + title: volatile fatty acids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - volatile fatty acids + rank: 382 + is_a: core field + slot_uri: MIXS:0000152 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + vfa_fw: + name: vfa_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original volatile fatty acid concentration in the hydrocarbon resource + title: vfa in formation water + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - vfa in formation water + rank: 383 + is_a: core field + slot_uri: MIXS:0000408 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + viscosity: + name: viscosity + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: cP at degree Celsius + occurrence: + tag: occurrence + value: '1' + description: A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C) + title: viscosity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - viscosity + rank: 384 + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000126 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + win: + name: win + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: 'A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)' + title: well identification number + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - well identification number + rank: 388 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000297 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + xylene: + name: xylene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of xylene in the sample + title: xylene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - xylene + rank: 389 + is_a: core field + slot_uri: MIXS:0000156 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + HcrFluidsSwabsInterface: + name: HcrFluidsSwabsInterface + description: hcr_fluids_swabs dh_interface + title: Hcr Fluids Swabs + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - add_recov_method + - additional_info + - alkalinity + - alkalinity_method + - ammonium + - api + - aromatics_pc + - asphaltenes_pc + - basin + - benzene + - biocide + - biocide_admin_method + - calcium + - chem_administration + - chem_treat_method + - chem_treatment + - chloride + - collection_date + - density + - depos_env + - depth + - diss_carb_dioxide + - diss_inorg_carb + - diss_inorg_phosp + - diss_iron + - diss_org_carb + - diss_oxygen_fluid + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - ethylbenzene + - experimental_factor + - field + - geo_loc_name + - hc_produced + - hcr + - hcr_fw_salinity + - hcr_geol_age + - hcr_pressure + - hcr_temp + - horizon_meth + - iw_bt_date_well + - iwf + - lat_lon + - lithology + - magnesium + - misc_param + - nitrate + - nitrite + - org_count_qpcr_info + - organism_count + - oxy_stat_samp + - ph + - ph_meth + - potassium + - pour_point + - pressure + - prod_rate + - prod_start_date + - reservoir + - resins_pc + - salinity + - samp_collec_device + - samp_collec_method + - samp_collect_point + - samp_loc_corr_rate + - samp_mat_process + - samp_preserv + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - samp_subtype + - samp_transport_cond + - samp_type + - samp_well_name + - sample_link + - saturates_pc + - size_frac + - sodium + - specific_ecosystem + - sulfate + - sulfate_fw + - sulfide + - suspend_solids + - tan + - temp + - toluene + - tot_iron + - tot_nitro + - tot_phosp + - tot_sulfur + - tvdss_of_hcr_press + - tvdss_of_hcr_temp + - vfa + - vfa_fw + - viscosity + - water_cut + - water_prod_rate + - win + - xylene + slot_usage: + add_recov_method: + name: add_recov_method + annotations: + expected_value: + tag: expected_value + value: enumeration;timestamp + occurrence: + tag: occurrence + value: '1' + description: Additional (i.e. Secondary, tertiary, etc.) recovery methods deployed for increase of hydrocarbon recovery from resource and start date for each one of them. If "other" is specified, please propose entry in "additional info" field + title: secondary and tertiary recovery methods and start date + examples: + - value: Polymer Addition;2018-06-21T14:30Z + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - secondary and tertiary recovery methods and start date + rank: 289 + is_a: core field + slot_uri: MIXS:0001009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + additional_info: + name: additional_info + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: Information that doesn't fit anywhere else. Can also be used to propose new entries for fields with controlled vocabulary + title: additional info + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - additional info + rank: 290 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000300 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alkalinity_method: + name: alkalinity_method + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: '1' + description: Method used for alkalinity measurement + title: alkalinity method + examples: + - value: titration + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity method + rank: 218 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000298 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + api: + name: api + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degrees API + occurrence: + tag: occurrence + value: '1' + description: 'API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity) (e.g. 31.1¬∞ API)' + title: API gravity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - API gravity + rank: 291 + is_a: core field + slot_uri: MIXS:0000157 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + aromatics_pc: + name: aromatics_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: aromatics wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aromatics wt% + rank: 292 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000133 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + asphaltenes_pc: + name: asphaltenes_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: asphaltenes wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - asphaltenes wt% + rank: 293 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000135 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + basin: + name: basin + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the basin (e.g. Campos) + title: basin name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - basin name + rank: 294 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000290 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + benzene: + name: benzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of benzene in the sample + title: benzene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - benzene + rank: 295 + is_a: core field + slot_uri: MIXS:0000153 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biocide: + name: biocide + annotations: + expected_value: + tag: expected_value + value: name;name;timestamp + occurrence: + tag: occurrence + value: '1' + description: List of biocides (commercial name of product and supplier) and date of administration + title: biocide administration + examples: + - value: ALPHA 1427;Baker Hughes;2008-01-23 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biocide administration + rank: 297 + is_a: core field + string_serialization: '{text};{text};{timestamp}' + slot_uri: MIXS:0001011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + biocide_admin_method: + name: biocide_admin_method + annotations: + expected_value: + tag: expected_value + value: measurement value;frequency;duration;duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Method of biocide administration (dose, frequency, duration, time elapsed between last biociding and sampling) (e.g. 150 mg/l; weekly; 4 hr; 3 days) + title: biocide administration method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biocide administration method + rank: 298 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration};{duration}' + slot_uri: MIXS:0000456 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chem_treat_method: + name: chem_treat_method + annotations: + expected_value: + tag: expected_value + value: measurement value;frequency;duration;duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Method of chemical administration(dose, frequency, duration, time elapsed between administration and sampling) (e.g. 50 mg/l; twice a week; 1 hr; 0 days) + title: chemical treatment method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical treatment method + rank: 302 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration};{duration};{duration}' + slot_uri: MIXS:0000457 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + chem_treatment: + name: chem_treatment + annotations: + expected_value: + tag: expected_value + value: name;name;timestamp + occurrence: + tag: occurrence + value: '1' + description: List of chemical compounds administered upstream the sampling location where sampling occurred (e.g. Glycols, H2S scavenger, corrosion and scale inhibitors, demulsifiers, and other production chemicals etc.). The commercial name of the product and name of the supplier should be provided. The date of administration should also be included + title: chemical treatment + examples: + - value: ACCENT 1125;DOW;2010-11-17 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical treatment + rank: 303 + is_a: core field + string_serialization: '{text};{text};{timestamp}' + slot_uri: MIXS:0001012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - density + rank: 12 + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + depos_env: + name: depos_env + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment). If "other" is specified, please propose entry in "additional info" field + title: depositional environment + examples: + - value: Continental - Alluvial + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depositional environment + rank: 304 + is_a: core field + slot_uri: MIXS:0000992 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: depos_env_enum + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_phosp: + name: diss_inorg_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic phosphorus in the sample + title: dissolved inorganic phosphorus + examples: + - value: 56.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic phosphorus + rank: 224 + is_a: core field + slot_uri: MIXS:0000106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_iron: + name: diss_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved iron in the sample + title: dissolved iron + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved iron + rank: 305 + is_a: core field + slot_uri: MIXS:0000139 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic carbon + rank: 17 + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen_fluid: + name: diss_oxygen_fluid + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity (e.g. Mic). + title: dissolved oxygen in fluids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen in fluids + rank: 306 + is_a: core field + slot_uri: MIXS:0000438 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + ethylbenzene: + name: ethylbenzene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ethylbenzene in the sample + title: ethylbenzene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ethylbenzene + rank: 309 + is_a: core field + slot_uri: MIXS:0000155 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + field: + name: field + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the hydrocarbon field (e.g. Albacora) + title: field name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - field name + rank: 310 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000291 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + hc_produced: + name: hc_produced + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main hydrocarbon type produced from resource (i.e. Oil, gas, condensate, etc). If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon type produced + examples: + - value: Gas + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon type produced + rank: 313 + is_a: core field + slot_uri: MIXS:0000989 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hc_produced_enum + hcr: + name: hcr + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Main Hydrocarbon Resource type. The term "Hydrocarbon Resource" HCR defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation. This term should not be confused with the Hydrocarbon Occurrence term which also includes hydrocarbon-rich environments with currently limited commercial interest such as seeps, outcrops, gas hydrates etc. If "other" is specified, please propose entry in "additional info" field + title: hydrocarbon resource type + examples: + - value: Oil Sand + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource type + rank: 314 + is_a: core field + slot_uri: MIXS:0000988 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hcr_enum + hcr_fw_salinity: + name: hcr_fw_salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS + title: formation water salinity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - formation water salinity + rank: 315 + is_a: core field + slot_uri: MIXS:0000406 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + hcr_geol_age: + name: hcr_geol_age + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Geological age of hydrocarbon resource (Additional info: https://en.wikipedia.org/wiki/Period_(geology)). If "other" is specified, please propose entry in "additional info" field' + title: hydrocarbon resource geological age + examples: + - value: Silurian + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource geological age + rank: 316 + is_a: core field + slot_uri: MIXS:0000993 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: hcr_geol_age_enum + hcr_pressure: + name: hcr_pressure + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: atmosphere, kilopascal + occurrence: + tag: occurrence + value: '1' + description: Original pressure of the hydrocarbon resource + title: hydrocarbon resource original pressure + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource original pressure + rank: 317 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000395 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + hcr_temp: + name: hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Original temperature of the hydrocarbon resource + title: hydrocarbon resource original temperature + examples: + - value: 150-295 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - hydrocarbon resource original temperature + rank: 318 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000393 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + iw_bt_date_well: + name: iw_bt_date_well + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: Injection water breakthrough date per well following a secondary and/or tertiary recovery + title: injection water breakthrough date of specific well + examples: + - value: '2018-05-11' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - injection water breakthrough date of specific well + rank: 334 + is_a: core field + slot_uri: MIXS:0001010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + iwf: + name: iwf + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: Proportion of the produced fluids derived from injected water at the time of sampling. (e.g. 87%) + title: injection water fraction + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - injection water fraction + rank: 335 + is_a: core field + slot_uri: MIXS:0000455 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + lithology: + name: lithology + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: 'Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination). If "other" is specified, please propose entry in "additional info" field' + title: lithology + examples: + - value: Volcanic + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - lithology + rank: 336 + is_a: core field + slot_uri: MIXS:0000990 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: lithology_enum + magnesium: + name: magnesium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter, parts per million, micromole per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of magnesium in the sample + title: magnesium + examples: + - value: 52.8 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - magnesium + rank: 21 + is_a: core field + slot_uri: MIXS:0000431 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_count_qpcr_info: + name: org_count_qpcr_info + annotations: + expected_value: + tag: expected_value + value: gene name;FWD:forward primer sequence;REV:reverse primer sequence;initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles + preferred_unit: + tag: preferred_unit + value: number of cells per gram (or ml or cm^2) + occurrence: + tag: occurrence + value: '1' + description: 'If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided. (Example: 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles)' + title: organism count qPCR information + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count qPCR information + rank: 337 + is_a: core field + string_serialization: '{text};FWD:{dna};REV:{dna};initial denaturation:degrees_minutes;denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final elongation:degrees_minutes; total cycles' + slot_uri: MIXS:0000099 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pour_point: + name: pour_point + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: 'Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high¬†pour point¬†is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material. (soure: https://en.wikipedia.org/wiki/pour_point)' + title: pour point + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pour point + rank: 341 + is_a: core field + slot_uri: MIXS:0000127 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + prod_rate: + name: prod_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Oil and/or gas production rates per well (e.g. 524 m3 / day) + title: production rate + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - production rate + rank: 344 + is_a: core field + slot_uri: MIXS:0000452 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + prod_start_date: + name: prod_start_date + annotations: + expected_value: + tag: expected_value + value: timestamp + occurrence: + tag: occurrence + value: '1' + description: Date of field's first production + title: production start date + examples: + - value: '2018-05-11' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - production start date + rank: 345 + is_a: core field + slot_uri: MIXS:0001008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + reservoir: + name: reservoir + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the reservoir (e.g. Carapebus) + title: reservoir name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - reservoir name + rank: 347 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000303 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + resins_pc: + name: resins_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: resins wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - resins wt% + rank: 348 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000134 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_collect_point: + name: samp_collect_point + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Sampling point on the asset were sample was collected (e.g. Wellhead, storage tank, separator, etc). If "other" is specified, please propose entry in "additional info" field + title: sample collection point + examples: + - value: well + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection point + rank: 349 + is_a: core field + slot_uri: MIXS:0001015 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_collect_point_enum + samp_loc_corr_rate: + name: samp_loc_corr_rate + annotations: + expected_value: + tag: expected_value + value: measurement value range + preferred_unit: + tag: preferred_unit + value: millimeter per year + occurrence: + tag: occurrence + value: '1' + description: Metal corrosion rate is the speed of metal deterioration due to environmental conditions. As environmental conditions change corrosion rates change accordingly. Therefore, long term corrosion rates are generally more informative than short term rates and for that reason they are preferred during reporting. In the case of suspected MIC, corrosion rate measurements at the time of sampling might provide insights into the involvement of certain microbial community members in MIC as well as potential microbial interplays + title: corrosion rate at sample location + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - corrosion rate at sample location + rank: 350 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000136 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_preserv: + name: samp_preserv + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: milliliter + occurrence: + tag: occurrence + value: '1' + description: Preservative added to the sample (e.g. Rnalater, alcohol, formaldehyde, etc.). Where appropriate include volume added (e.g. Rnalater; 2 ml) + title: preservative added to sample + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - preservative added to sample + rank: 352 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000463 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_subtype: + name: samp_subtype + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Name of sample sub-type. For example if "sample type" is "Produced Water" then subtype could be "Oil Phase" or "Water Phase". If "other" is specified, please propose entry in "additional info" field + title: sample subtype + examples: + - value: biofilm + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample subtype + rank: 354 + is_a: core field + slot_uri: MIXS:0000999 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_subtype_enum + samp_transport_cond: + name: samp_transport_cond + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: days;degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g. 5.5 days; 20 ¬∞C) + title: sample transport conditions + examples: + - value: 5 days;-20 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample transport conditions + rank: 355 + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000410 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_type: + name: samp_type + annotations: + expected_value: + tag: expected_value + value: GENEPIO:0001246 + occurrence: + tag: occurrence + value: '1' + description: The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246). + title: sample type + examples: + - value: built environment sample [GENEPIO:0001248] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample type + rank: 357 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000998 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + samp_well_name: + name: samp_well_name + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Name of the well (e.g. BXA1123) where sample was taken + title: sample well name + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample well name + rank: 358 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000296 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + saturates_pc: + name: saturates_pc + annotations: + expected_value: + tag: expected_value + value: name;measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: 'Saturate, Aromatic, Resin and Asphaltene¬†(SARA) is an analysis method that divides¬†crude oil¬†components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)' + title: saturates wt% + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - saturates wt% + rank: 359 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000131 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfate_fw: + name: sulfate_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original sulfate concentration in the hydrocarbon resource + title: sulfate in formation water + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate in formation water + rank: 370 + is_a: core field + slot_uri: MIXS:0000407 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + suspend_solids: + name: suspend_solids + annotations: + expected_value: + tag: expected_value + value: suspended solid name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, milligram per liter, mole per liter, gram per liter, part per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances + title: suspended solids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - suspended solids + rank: 372 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000150 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + tan: + name: tan + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total Acid Number¬†(TAN) is a measurement of acidity that is determined by the amount of¬†potassium hydroxide¬†in milligrams that is needed to neutralize the acids in one gram of oil.¬†It is an important quality measurement of¬†crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)' + title: total acid number + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total acid number + rank: 373 + is_a: core field + slot_uri: MIXS:0000120 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + toluene: + name: toluene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of toluene in the sample + title: toluene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - toluene + rank: 375 + is_a: core field + slot_uri: MIXS:0000154 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_iron: + name: tot_iron + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, milligram per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of total iron in the sample + title: total iron + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total iron + rank: 376 + is_a: core field + slot_uri: MIXS:0000105 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro: + name: tot_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen' + title: total nitrogen concentration + examples: + - value: 50 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total nitrogen concentration + rank: 377 + is_a: core field + slot_uri: MIXS:0000102 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_phosp: + name: tot_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: 'Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus' + title: total phosphorus + examples: + - value: 0.03 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total phosphorus + rank: 52 + is_a: core field + slot_uri: MIXS:0000117 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_sulfur: + name: tot_sulfur + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of total sulfur in the sample + title: total sulfur + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total sulfur + rank: 379 + is_a: core field + slot_uri: MIXS:0000419 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tvdss_of_hcr_press: + name: tvdss_of_hcr_press + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured (e.g. 1578 m). + title: depth (TVDSS) of hydrocarbon resource pressure + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth (TVDSS) of hydrocarbon resource pressure + rank: 380 + is_a: core field + slot_uri: MIXS:0000397 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tvdss_of_hcr_temp: + name: tvdss_of_hcr_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured (e.g. 1345 m). + title: depth (TVDSS) of hydrocarbon resource temperature + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth (TVDSS) of hydrocarbon resource temperature + rank: 381 + is_a: core field + slot_uri: MIXS:0000394 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + vfa: + name: vfa + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of Volatile Fatty Acids in the sample + title: volatile fatty acids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - volatile fatty acids + rank: 382 + is_a: core field + slot_uri: MIXS:0000152 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + vfa_fw: + name: vfa_fw + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Original volatile fatty acid concentration in the hydrocarbon resource + title: vfa in formation water + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - vfa in formation water + rank: 383 + is_a: core field + slot_uri: MIXS:0000408 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + viscosity: + name: viscosity + annotations: + expected_value: + tag: expected_value + value: measurement value;measurement value + preferred_unit: + tag: preferred_unit + value: cP at degree Celsius + occurrence: + tag: occurrence + value: '1' + description: A measure of oil's resistance¬†to gradual deformation by¬†shear stress¬†or¬†tensile stress (e.g. 3.5 cp; 100 ¬∞C) + title: viscosity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - viscosity + rank: 384 + is_a: core field + string_serialization: '{float} {unit};{float} {unit}' + slot_uri: MIXS:0000126 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + water_cut: + name: water_cut + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percent + occurrence: + tag: occurrence + value: '1' + description: Current amount of water (%) in a produced fluid stream; or the average of the combined streams + title: water cut + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water cut + rank: 386 + is_a: core field + slot_uri: MIXS:0000454 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_prod_rate: + name: water_prod_rate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Water production rates per well (e.g. 987 m3 / day) + title: water production rate + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water production rate + rank: 387 + is_a: core field + slot_uri: MIXS:0000453 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + win: + name: win + annotations: + expected_value: + tag: expected_value + value: text + occurrence: + tag: occurrence + value: '1' + description: 'A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)' + title: well identification number + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - well identification number + rank: 388 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000297 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + xylene: + name: xylene + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of xylene in the sample + title: xylene + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - xylene + rank: 389 + is_a: core field + slot_uri: MIXS:0000156 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + HostAssociatedInterface: + name: HostAssociatedInterface + description: host_associated dh_interface + title: Host Associated + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - alt + - ances_data + - biol_stat + - blood_press_diast + - blood_press_syst + - chem_administration + - collection_date + - depth + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - genetic_mod + - geo_loc_name + - gravidity + - horizon_meth + - host_age + - host_body_habitat + - host_body_product + - host_body_site + - host_body_temp + - host_color + - host_common_name + - host_diet + - host_dry_mass + - host_family_relation + - host_genotype + - host_growth_cond + - host_height + - host_last_meal + - host_length + - host_life_stage + - host_phenotype + - host_sex + - host_shape + - host_subject_id + - host_subspecf_genlin + - host_substrate + - host_symbiont + - host_taxid + - host_tot_mass + - lat_lon + - misc_param + - organism_count + - oxy_stat_samp + - perturbation + - salinity + - samp_capt_status + - samp_collec_device + - samp_collec_method + - samp_dis_stage + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - size_frac + - specific_ecosystem + - temp + slot_usage: + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - altitude + rank: 26 + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ances_data: + name: ances_data + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B) + title: ancestral data + examples: + - value: A/3*B + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ancestral data + rank: 237 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000247 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + biol_stat: + name: biol_stat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The level of genome modification. + title: biological status + examples: + - value: natural + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biological status + rank: 239 + is_a: core field + slot_uri: MIXS:0000858 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: biol_stat_enum + blood_press_diast: + name: blood_press_diast + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter mercury + occurrence: + tag: occurrence + value: '1' + description: Resting diastolic blood pressure, measured as mm mercury + title: host blood pressure diastolic + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host blood pressure diastolic + rank: 299 + is_a: core field + slot_uri: MIXS:0000258 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + blood_press_syst: + name: blood_press_syst + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millimeter mercury + occurrence: + tag: occurrence + value: '1' + description: Resting systolic blood pressure, measured as mm mercury + title: host blood pressure systolic + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host blood pressure systolic + rank: 300 + is_a: core field + slot_uri: MIXS:0000259 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + genetic_mod: + name: genetic_mod + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection + title: genetic modification + examples: + - value: aox1A transgenic + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - genetic modification + rank: 244 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0000859 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + gravidity: + name: gravidity + annotations: + expected_value: + tag: expected_value + value: gravidity status;timestamp + occurrence: + tag: occurrence + value: '1' + description: Whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used + title: gravidity + examples: + - value: yes;due date:2018-05-11 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - gravidity + rank: 312 + is_a: core field + string_serialization: '{boolean};{timestamp}' + slot_uri: MIXS:0000875 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + host_age: + name: host_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: year, day, hour + occurrence: + tag: occurrence + value: '1' + description: Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees + title: host age + examples: + - value: 10 days + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host age + rank: 249 + is_a: core field + slot_uri: MIXS:0000255 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_body_habitat: + name: host_body_habitat + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Original body habitat where the sample was obtained from + title: host body habitat + examples: + - value: nasopharynx + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host body habitat + rank: 319 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000866 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_body_product: + name: host_body_product + annotations: + expected_value: + tag: expected_value + value: FMA or UBERON + occurrence: + tag: occurrence + value: '1' + description: Substance produced by the body, e.g. Stool, mucus, where the sample was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma or https://www.ebi.ac.uk/ols/ontologies/uberon + title: host body product + examples: + - value: Portion of mucus [fma66938] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host body product + rank: 320 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000888 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + host_body_site: + name: host_body_site + annotations: + expected_value: + tag: expected_value + value: FMA or UBERON + occurrence: + tag: occurrence + value: '1' + description: Name of body site where the sample was obtained from, such as a specific organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms, please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON + title: host body site + examples: + - value: gill [UBERON:0002535] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host body site + rank: 321 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000867 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + host_body_temp: + name: host_body_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Core body temperature of the host when sample was collected + title: host body temperature + examples: + - value: 15 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host body temperature + rank: 322 + is_a: core field + slot_uri: MIXS:0000274 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_color: + name: host_color + annotations: + expected_value: + tag: expected_value + value: color + occurrence: + tag: occurrence + value: '1' + description: The color of host + title: host color + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host color + rank: 323 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000260 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_common_name: + name: host_common_name + annotations: + expected_value: + tag: expected_value + value: common name + occurrence: + tag: occurrence + value: '1' + description: Common name of the host. + title: host common name + examples: + - value: human + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host common name + rank: 250 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000248 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_diet: + name: host_diet + annotations: + expected_value: + tag: expected_value + value: diet type + occurrence: + tag: occurrence + value: m + description: Type of diet depending on the host, for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types + title: host diet + examples: + - value: herbivore + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host diet + rank: 324 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000869 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_dry_mass: + name: host_dry_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Measurement of dry mass + title: host dry mass + examples: + - value: 500 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host dry mass + rank: 251 + is_a: core field + slot_uri: MIXS:0000257 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_family_relation: + name: host_family_relation + annotations: + expected_value: + tag: expected_value + value: relationship type;arbitrary identifier + occurrence: + tag: occurrence + value: m + description: Familial relationships to other hosts in the same study; can include multiple relationships + title: host family relationship + examples: + - value: offspring;Mussel25 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host family relationship + rank: 325 + is_a: core field + string_serialization: '{text};{text}' + slot_uri: MIXS:0000872 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_genotype: + name: host_genotype + annotations: + expected_value: + tag: expected_value + value: genotype + occurrence: + tag: occurrence + value: '1' + description: Observed genotype + title: host genotype + examples: + - value: C57BL/6 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host genotype + rank: 252 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000365 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_growth_cond: + name: host_growth_cond + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Literature reference giving growth conditions of the host + title: host growth conditions + examples: + - value: https://academic.oup.com/icesjms/article/68/2/349/617247 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host growth conditions + rank: 326 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0000871 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_height: + name: host_height + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The height of subject + title: host height + examples: + - value: 0.1 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host height + rank: 253 + is_a: core field + slot_uri: MIXS:0000264 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_last_meal: + name: host_last_meal + annotations: + expected_value: + tag: expected_value + value: content;duration + occurrence: + tag: occurrence + value: m + description: Content of last meal and time since feeding; can include multiple values + title: host last meal + examples: + - value: corn feed;P2H + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host last meal + rank: 327 + is_a: core field + string_serialization: '{text};{duration}' + slot_uri: MIXS:0000870 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_length: + name: host_length + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The length of subject + title: host length + examples: + - value: 1 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host length + rank: 254 + is_a: core field + slot_uri: MIXS:0000256 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_life_stage: + name: host_life_stage + annotations: + expected_value: + tag: expected_value + value: stage + occurrence: + tag: occurrence + value: '1' + description: Description of life stage of host + title: host life stage + examples: + - value: adult + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host life stage + rank: 255 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000251 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_phenotype: + name: host_phenotype + annotations: + expected_value: + tag: expected_value + value: PATO or HP + occurrence: + tag: occurrence + value: '1' + description: Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP + title: host phenotype + examples: + - value: elongated [PATO:0001154] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host phenotype + rank: 256 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000874 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + host_sex: + name: host_sex + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Gender or physical sex of the host. + title: host sex + examples: + - value: non-binary + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host sex + rank: 328 + is_a: core field + slot_uri: MIXS:0000811 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: host_sex_enum + host_shape: + name: host_shape + annotations: + expected_value: + tag: expected_value + value: shape + occurrence: + tag: occurrence + value: '1' + description: Morphological shape of host + title: host shape + examples: + - value: round + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host shape + rank: 329 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000261 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_subject_id: + name: host_subject_id + annotations: + expected_value: + tag: expected_value + value: unique identifier + occurrence: + tag: occurrence + value: '1' + description: A unique identifier by which each subject can be referred to, de-identified. + title: host subject id + examples: + - value: MPI123 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host subject id + rank: 330 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000861 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_subspecf_genlin: + name: host_subspecf_genlin + annotations: + expected_value: + tag: expected_value + value: Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar. + occurrence: + tag: occurrence + value: m + description: Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123. + title: host subspecific genetic lineage + examples: + - value: 'serovar:Newport, variety:glabrum, cultivar: Red Delicious' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host subspecific genetic lineage + rank: 257 + is_a: core field + string_serialization: '{rank name}:{text}' + slot_uri: MIXS:0001318 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_substrate: + name: host_substrate + annotations: + expected_value: + tag: expected_value + value: substrate name + occurrence: + tag: occurrence + value: '1' + description: The growth substrate of the host. + title: host substrate + examples: + - value: rock + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host substrate + rank: 331 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000252 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_symbiont: + name: host_symbiont + annotations: + expected_value: + tag: expected_value + value: species name or common name + occurrence: + tag: occurrence + value: m + description: The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host. + title: observed host symbionts + examples: + - value: flukeworms + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - observed host symbionts + rank: 258 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001298 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_taxid: + name: host_taxid + annotations: + expected_value: + tag: expected_value + value: NCBI taxon identifier + occurrence: + tag: occurrence + value: '1' + description: NCBI taxon id of the host, e.g. 9606 + title: host taxid + comments: + - Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host taxid + rank: 259 + is_a: core field + slot_uri: MIXS:0000250 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_tot_mass: + name: host_tot_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Total mass of the host at collection, the unit depends on host + title: host total mass + examples: + - value: 2500 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host total mass + rank: 260 + is_a: core field + slot_uri: MIXS:0000263 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_capt_status: + name: samp_capt_status + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Reason for the sample + title: sample capture status + examples: + - value: farm sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample capture status + rank: 282 + is_a: core field + slot_uri: MIXS:0000860 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_capt_status_enum + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_dis_stage: + name: samp_dis_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen. + title: sample disease stage + examples: + - value: infection + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample disease stage + rank: 283 + is_a: core field + slot_uri: MIXS:0000249 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_dis_stage_enum + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + JgiMgInterface: + name: JgiMgInterface + description: jgi_mg dh_interface + title: JGI MG + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - dna_absorb1 + - dna_absorb2 + - dna_concentration + - dna_cont_type + - dna_cont_well + - dna_container_id + - dna_dnase + - dna_isolate_meth + - dna_project_contact + - dna_samp_id + - dna_sample_format + - dna_sample_name + - dna_seq_project + - dna_seq_project_name + - dna_seq_project_pi + - dna_volume + - proposal_dna + - dna_absorb1 + - dna_absorb2 + - dna_concentration + - dna_cont_type + - dna_cont_well + - dna_container_id + - dna_dnase + - dna_isolate_meth + - dna_project_contact + - dna_samp_id + - dna_sample_format + - dna_sample_name + - dna_seq_project + - dna_seq_project_name + - dna_seq_project_pi + - dna_volume + - proposal_dna + slot_usage: + dna_absorb1: + name: dna_absorb1 + description: 260/280 measurement of DNA sample purity + title: DNA absorbance 260/280 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: float + recommended: true + dna_absorb2: + name: dna_absorb2 + description: 260/230 measurement of DNA sample purity + title: DNA absorbance 260/230 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: float + recommended: true + dna_concentration: + name: dna_concentration + title: DNA concentration in ng/ul + comments: + - Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000. + examples: + - value: '100' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: float + required: true + recommended: true + minimum_value: 0 + maximum_value: 2000 + dna_cont_type: + name: dna_cont_type + description: Tube or plate (96-well) + title: DNA container type + examples: + - value: plate + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 10 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: JgiContTypeEnum + required: true + recommended: true + dna_cont_well: + name: dna_cont_well + title: DNA plate position + comments: + - Required when 'plate' is selected for container type. + - Leave blank if the sample will be shipped in a tube. + - JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation. + - For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8). + examples: + - value: B2 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 11 + string_serialization: '{96 well plate pos}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + recommended: true + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + multivalued: false + dna_container_id: + name: dna_container_id + title: DNA container label + comments: + - Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label. + examples: + - value: Pond_MT_041618 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 9 + string_serialization: '{text < 20 characters}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + pattern: ^.{1,20}$ + multivalued: false + dna_dnase: + name: dna_dnase + title: DNase treatment DNA + comments: + - Note DNase treatment is required for all RNA samples. + examples: + - value: 'no' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 13 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: YesNoEnum + required: true + recommended: true + dna_isolate_meth: + name: dna_isolate_meth + description: Describe the method/protocol/kit used to extract DNA/RNA. + title: DNA isolation method + examples: + - value: phenol/chloroform extraction + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 16 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_project_contact: + name: dna_project_contact + title: DNA seq project contact + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: John Jones + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 18 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_samp_id: + name: dna_samp_id + title: DNA sample ID + todos: + - Removed identifier = TRUE from dna_samp_ID in JGI_sample_slots, as a class can't have two identifiers. How to force uniqueness? Moot because that column will be prefilled? + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '187654' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 3 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_sample_format: + name: dna_sample_format + description: Solution in which the DNA sample has been suspended + title: DNA sample format + examples: + - value: Water + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 12 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: dna_sample_format_enum + required: true + recommended: true + dna_sample_name: + name: dna_sample_name + description: Give the DNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only. + title: DNA sample name + examples: + - value: JGI_pond_041618 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 4 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_seq_project: + name: dna_seq_project + title: DNA seq project ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '1191234' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 1 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_seq_project_name: + name: dna_seq_project_name + title: DNA seq project name + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: JGI Pond metagenomics + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 2 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_seq_project_pi: + name: dna_seq_project_pi + title: DNA seq project PI + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: Jane Johnson + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 17 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + dna_volume: + name: dna_volume + title: DNA volume in ul + comments: + - Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only. + examples: + - value: '25' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: float + required: true + recommended: true + minimum_value: 25 + maximum_value: 1000 + proposal_dna: + name: proposal_dna + title: DNA proposal ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '504000' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 19 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metagenomics_section + range: string + required: true + recommended: true + multivalued: false + oxy_stat_samp: + name: oxy_stat_samp + range: OxyStatSampEnum + rules: + - preconditions: + slot_conditions: + dna_cont_well: + name: dna_cont_well + pattern: .+ + postconditions: + slot_conditions: + dna_cont_type: + name: dna_cont_type + equals_string: plate + description: DNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position. + title: dna_well_requires_plate + - preconditions: + slot_conditions: + dna_cont_type: + name: dna_cont_type + equals_string: plate + postconditions: + slot_conditions: + dna_cont_well: + name: dna_cont_well + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + description: DNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime + title: dna_plate_requires_well + JgiMtInterface: + name: JgiMtInterface + description: jgi_mt dh_interface + title: JGI MT + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - dnase_rna + - proposal_rna + - rna_absorb1 + - rna_absorb2 + - rna_concentration + - rna_cont_type + - rna_cont_well + - rna_container_id + - rna_isolate_meth + - rna_project_contact + - rna_samp_id + - rna_sample_format + - rna_sample_name + - rna_seq_project + - rna_seq_project_name + - rna_seq_project_pi + - rna_volume + - dnase_rna + - proposal_rna + - rna_absorb1 + - rna_absorb2 + - rna_concentration + - rna_cont_type + - rna_cont_well + - rna_container_id + - rna_isolate_meth + - rna_project_contact + - rna_samp_id + - rna_sample_format + - rna_sample_name + - rna_seq_project + - rna_seq_project_name + - rna_seq_project_pi + - rna_volume + slot_usage: + dnase_rna: + name: dnase_rna + title: DNase treated + comments: + - Note DNase treatment is required for all RNA samples. + examples: + - value: 'no' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 13 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: YesNoEnum + required: true + recommended: true + proposal_rna: + name: proposal_rna + title: RNA proposal ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '504000' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 19 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_absorb1: + name: rna_absorb1 + description: 260/280 measurement of RNA sample purity + title: RNA absorbance 260/280 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: float + recommended: true + rna_absorb2: + name: rna_absorb2 + description: 260/230 measurement of RNA sample purity + title: RNA absorbance 260/230 + comments: + - Recommended value is between 1 and 3. + examples: + - value: '2.02' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: float + recommended: true + rna_concentration: + name: rna_concentration + title: RNA concentration in ng/ul + comments: + - Units must be in ng/uL. Enter the numerical part only. Must be calculated using a fluorometric method. Acceptable values are 0-2000. + examples: + - value: '100' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: float + required: true + recommended: true + minimum_value: 0 + maximum_value: 1000 + rna_cont_type: + name: rna_cont_type + description: Tube or plate (96-well) + title: RNA container type + examples: + - value: plate + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 10 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: JgiContTypeEnum + required: true + recommended: true + rna_cont_well: + name: rna_cont_well + title: RNA plate position + comments: + - Required when 'plate' is selected for container type. + - Leave blank if the sample will be shipped in a tube. + - JGI will not process samples in corner wells, so A1, A12, H1 and H12 will not pass validation. + - For partial plates, fill by columns, like B1-G1,A2-H2,A3-D3 (NOT A2-A11,B1-B8). + examples: + - value: B2 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 11 + string_serialization: '{96 well plate pos}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + recommended: true + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + multivalued: false + rna_container_id: + name: rna_container_id + title: RNA container label + comments: + - Must be unique across all tubes and plates, and <20 characters. All samples in a plate should have the same plate label. + examples: + - value: Pond_MT_041618 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 9 + string_serialization: '{text < 20 characters}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + pattern: ^.{1,20}$ + multivalued: false + rna_isolate_meth: + name: rna_isolate_meth + description: Describe the method/protocol/kit used to extract DNA/RNA. + title: RNA isolation method + examples: + - value: phenol/chloroform extraction + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 16 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_project_contact: + name: rna_project_contact + title: RNA seq project contact + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: John Jones + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 18 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_samp_id: + name: rna_samp_id + title: RNA sample ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '187654' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 3 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_sample_format: + name: rna_sample_format + description: Solution in which the RNA sample has been suspended + title: RNA sample format + examples: + - value: Water + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 12 + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: rna_sample_format_enum + required: true + recommended: true + rna_sample_name: + name: rna_sample_name + description: Give the RNA sample a name that is meaningful to you. Sample names must be unique across all JGI projects and contain a-z, A-Z, 0-9, - and _ only. + title: RNA sample name + examples: + - value: JGI_pond_041618 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 4 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + minimum_value: 0 + maximum_value: 2000 + multivalued: false + rna_seq_project: + name: rna_seq_project + title: RNA seq project ID + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: '1191234' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 1 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_seq_project_name: + name: rna_seq_project_name + title: RNA seq project name + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: JGI Pond metatranscriptomics + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 2 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_seq_project_pi: + name: rna_seq_project_pi + title: RNA seq project PI + comments: + - Do not edit these values. A template will be provided by NMDC in which these values have been pre-filled. + examples: + - value: Jane Johnson + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 17 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: string + required: true + recommended: true + multivalued: false + rna_volume: + name: rna_volume + title: RNA volume in ul + comments: + - Units must be in uL. Enter the numerical part only. Value must be 0-1000. Values <25 by special permission only. + examples: + - value: '25' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + string_serialization: '{float}' + owner: Biosample + domain_of: + - Biosample + slot_group: jgi_metatranscriptomics_section + range: float + required: true + recommended: true + minimum_value: 25 + maximum_value: 1000 + oxy_stat_samp: + name: oxy_stat_samp + range: OxyStatSampEnum + rules: + - preconditions: + slot_conditions: + rna_cont_well: + name: rna_cont_well + pattern: .+ + postconditions: + slot_conditions: + rna_cont_type: + name: rna_cont_type + equals_string: plate + description: RNA samples shipped to JGI for metagenomic analysis in tubes can't have any value for their plate position. + title: rna_well_requires_plate + - preconditions: + slot_conditions: + rna_cont_type: + name: rna_cont_type + equals_string: plate + postconditions: + slot_conditions: + rna_cont_well: + name: rna_cont_well + pattern: ^(?!A1|A12|H1|H12)(([A-H][1-9])|([A-H]1[0-2]))$ + description: RNA samples in plates must have a plate position that matches the regex. Note the requirement for an empty string in the tube case. Waiting for value_present validation to be added to runtime + title: rna_plate_requires_well + MiscEnvsInterface: + name: MiscEnvsInterface + description: misc_envs dh_interface + title: Misc Envs + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + slots: + - alkalinity + - alt + - ammonium + - biomass + - bromide + - calcium + - chem_administration + - chloride + - chlorophyll + - collection_date + - density + - depth + - diether_lipids + - diss_carb_dioxide + - diss_hydrogen + - diss_inorg_carb + - diss_org_nitro + - diss_oxygen + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - geo_loc_name + - horizon_meth + - lat_lon + - misc_param + - nitrate + - nitrite + - nitro + - org_carb + - org_matter + - org_nitro + - organism_count + - oxy_stat_samp + - perturbation + - ph + - ph_meth + - phosphate + - phosplipid_fatt_acid + - potassium + - pressure + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - silicate + - size_frac + - sodium + - specific_ecosystem + - sulfate + - sulfide + - temp + - water_current + slot_usage: + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alt: + name: alt + annotations: + expected_value: + tag: expected_value + value: measurement value + description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air + title: altitude + examples: + - value: 100 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - altitude + rank: 26 + is_a: environment field + slot_uri: MIXS:0000094 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biomass: + name: biomass + annotations: + expected_value: + tag: expected_value + value: biomass type;measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram + occurrence: + tag: occurrence + value: m + description: Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements + title: biomass + examples: + - value: total;20 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biomass + rank: 6 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000174 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + bromide: + name: bromide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of bromide + title: bromide + examples: + - value: 0.05 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bromide + rank: 8 + is_a: core field + slot_uri: MIXS:0000176 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chlorophyll: + name: chlorophyll + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter, microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of chlorophyll + title: chlorophyll + examples: + - value: 5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chlorophyll + rank: 11 + is_a: core field + slot_uri: MIXS:0000177 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - density + rank: 12 + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + diether_lipids: + name: diether_lipids + annotations: + expected_value: + tag: expected_value + value: diether lipid name;measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of diether lipids; can include multiple types of diether lipids + title: diether lipids + examples: + - value: 0.2 nanogram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - diether lipids + rank: 13 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000178 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_hydrogen: + name: diss_hydrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved hydrogen + title: dissolved hydrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved hydrogen + rank: 15 + is_a: core field + slot_uri: MIXS:0000179 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_nitro: + name: diss_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 + title: dissolved organic nitrogen + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic nitrogen + rank: 18 + is_a: core field + slot_uri: MIXS:0000162 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen: + name: diss_oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen + title: dissolved oxygen + examples: + - value: 175 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen + rank: 19 + is_a: core field + slot_uri: MIXS:0000119 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitro: + name: nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrogen (total) + title: nitrogen + examples: + - value: 4.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrogen + rank: 28 + is_a: core field + slot_uri: MIXS:0000504 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_carb: + name: org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic carbon + title: organic carbon + examples: + - value: 1.5 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic carbon + rank: 29 + is_a: core field + slot_uri: MIXS:0000508 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic matter + rank: 45 + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic nitrogen + rank: 46 + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + phosplipid_fatt_acid: + name: phosplipid_fatt_acid + annotations: + expected_value: + tag: expected_value + value: phospholipid fatty acid name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per gram, mole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of phospholipid fatty acids; can include multiple values + title: phospholipid fatty acid + examples: + - value: 2.98 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phospholipid fatty acid + rank: 36 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000181 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + silicate: + name: silicate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of silicate + title: silicate + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - silicate + rank: 43 + is_a: core field + slot_uri: MIXS:0000184 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_current: + name: water_current + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per second, knots + occurrence: + tag: occurrence + value: '1' + description: Measurement of magnitude and direction of flow within a fluid + title: water current + examples: + - value: 10 cubic meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water current + rank: 236 + is_a: core field + slot_uri: MIXS:0000203 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + PlantAssociatedInterface: + name: PlantAssociatedInterface + description: plant_associated dh_interface + title: Plant Associated + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - air_temp_regm + - ances_data + - antibiotic_regm + - biol_stat + - biotic_regm + - chem_administration + - chem_mutagen + - climate_environment + - collection_date + - cult_root_med + - depth + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - fertilizer_regm + - fungicide_regm + - gaseous_environment + - genetic_mod + - geo_loc_name + - gravity + - growth_facil + - growth_habit + - growth_hormone_regm + - herbicide_regm + - horizon_meth + - host_age + - host_common_name + - host_dry_mass + - host_genotype + - host_height + - host_length + - host_life_stage + - host_phenotype + - host_subspecf_genlin + - host_symbiont + - host_taxid + - host_tot_mass + - host_wet_mass + - humidity_regm + - lat_lon + - light_regm + - mechanical_damage + - mineral_nutr_regm + - misc_param + - non_min_nutr_regm + - organism_count + - oxy_stat_samp + - perturbation + - pesticide_regm + - ph_regm + - plant_growth_med + - plant_product + - plant_sex + - plant_struc + - radiation_regm + - rainfall_regm + - root_cond + - root_med_carbon + - root_med_macronutr + - root_med_micronutr + - root_med_ph + - root_med_regl + - root_med_solid + - root_med_suppl + - salinity + - salt_regm + - samp_capt_status + - samp_collec_device + - samp_collec_method + - samp_dis_stage + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - season_environment + - size_frac + - specific_ecosystem + - standing_water_regm + - temp + - tiss_cult_growth_med + - water_temp_regm + - watering_regm + slot_usage: + air_temp_regm: + name: air_temp_regm + annotations: + expected_value: + tag: expected_value + value: temperature value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens + title: air temperature regimen + examples: + - value: 25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - air temperature regimen + rank: 16 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000551 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + ances_data: + name: ances_data + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about either pedigree or other ancestral information description (e.g. parental variety in case of mutant or selection), e.g. A/3*B (meaning [(A x B) x B] x B) + title: ancestral data + examples: + - value: A/3*B + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ancestral data + rank: 237 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000247 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + antibiotic_regm: + name: antibiotic_regm + annotations: + expected_value: + tag: expected_value + value: antibiotic name;antibiotic amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: milligram + occurrence: + tag: occurrence + value: m + description: Information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple antibiotic regimens + title: antibiotic regimen + examples: + - value: penicillin;5 milligram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - antibiotic regimen + rank: 238 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000553 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + biol_stat: + name: biol_stat + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: The level of genome modification. + title: biological status + examples: + - value: natural + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biological status + rank: 239 + is_a: core field + slot_uri: MIXS:0000858 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: biol_stat_enum + biotic_regm: + name: biotic_regm + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi. + title: biotic regimen + examples: + - value: sample inoculated with Rhizobium spp. Culture + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biotic regimen + rank: 13 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001038 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chem_mutagen: + name: chem_mutagen + annotations: + expected_value: + tag: expected_value + value: mutagen name;mutagen amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: m + description: Treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mutagen regimens + title: chemical mutagen + examples: + - value: nitrous acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical mutagen + rank: 240 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000555 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + climate_environment: + name: climate_environment + description: Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates + title: climate environment + todos: + - description says "can include multiple climates" but multivalued is set to false + - add examples, i need to see some examples to add correctly formatted example. + - description says "can include multiple climates" but multivalued is set to false + - add examples, i need to see some examples to add correctly formatted example. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 19 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001040 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + cult_root_med: + name: cult_root_med + annotations: + expected_value: + tag: expected_value + value: name, PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Name or reference for the hydroponic or in vitro culture rooting medium; can be the name of a commonly used medium or reference to a specific medium, e.g. Murashige and Skoog medium. If the medium has not been formally published, use the rooting medium descriptors. + title: culture rooting medium + examples: + - value: http://himedialabs.com/TD/PT158.pdf + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - culture rooting medium + rank: 241 + is_a: core field + string_serialization: '{text}|{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001041 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + fertilizer_regm: + name: fertilizer_regm + annotations: + expected_value: + tag: expected_value + value: fertilizer name;fertilizer amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the use of fertilizers; should include the name of fertilizer, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fertilizer regimens + title: fertilizer regimen + examples: + - value: urea;0.6 milligram per liter;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - fertilizer regimen + rank: 242 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000556 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + fungicide_regm: + name: fungicide_regm + annotations: + expected_value: + tag: expected_value + value: fungicide name;fungicide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple fungicide regimens + title: fungicide regimen + examples: + - value: bifonazole;1 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - fungicide regimen + rank: 243 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000557 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + gaseous_environment: + name: gaseous_environment + description: Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens + title: gaseous environment + todos: + - would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value + - did I do this right? keep the example that's provided and add another? so as to not override + - would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value + - did I do this right? keep the example that's provided and add another? so as to not override + examples: + - value: CO2; 500ppm above ambient; constant + - value: nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 20 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000558 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + genetic_mod: + name: genetic_mod + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Genetic modifications of the genome of an organism, which may occur naturally by spontaneous mutation, or be introduced by some experimental means, e.g. specification of a transgene or the gene knocked-out or details of transient transfection + title: genetic modification + examples: + - value: aox1A transgenic + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - genetic modification + rank: 244 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0000859 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + gravity: + name: gravity + annotations: + expected_value: + tag: expected_value + value: gravity factor value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: meter per square second, g + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple treatments + title: gravity + examples: + - value: 12 g;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - gravity + rank: 245 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000559 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + growth_facil: + name: growth_facil + annotations: + expected_value: + tag: expected_value + value: free text or CO + occurrence: + tag: occurrence + value: '1' + description: 'Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.' + title: growth facility + notes: + - 'Removed from description: Alternatively use Crop Ontology (CO) terms' + examples: + - value: Growth chamber [CO_715:0000189] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - growth facility + rank: 1 + is_a: core field + string_serialization: '{text}|{termLabel} {[termID]}' + slot_uri: MIXS:0001043 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: GrowthFacilEnum + required: true + growth_habit: + name: growth_habit + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Characteristic shape, appearance or growth form of a plant species + title: growth habit + examples: + - value: spreading + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - growth habit + rank: 246 + is_a: core field + slot_uri: MIXS:0001044 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: growth_habit_enum + growth_hormone_regm: + name: growth_hormone_regm + annotations: + expected_value: + tag: expected_value + value: growth hormone name;growth hormone amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple growth hormone regimens + title: growth hormone regimen + examples: + - value: abscisic acid;0.5 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - growth hormone regimen + rank: 247 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000560 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + herbicide_regm: + name: herbicide_regm + annotations: + expected_value: + tag: expected_value + value: herbicide name;herbicide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: herbicide regimen + examples: + - value: atrazine;10 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - herbicide regimen + rank: 248 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000561 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + host_age: + name: host_age + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: year, day, hour + occurrence: + tag: occurrence + value: '1' + description: Age of host at the time of sampling; relevant scale depends on species and study, e.g. Could be seconds for amoebae or centuries for trees + title: host age + examples: + - value: 10 days + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host age + rank: 249 + is_a: core field + slot_uri: MIXS:0000255 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_common_name: + name: host_common_name + annotations: + expected_value: + tag: expected_value + value: common name + occurrence: + tag: occurrence + value: '1' + description: Common name of the host. + title: host common name + examples: + - value: human + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host common name + rank: 250 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000248 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_dry_mass: + name: host_dry_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Measurement of dry mass + title: host dry mass + examples: + - value: 500 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host dry mass + rank: 251 + is_a: core field + slot_uri: MIXS:0000257 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_genotype: + name: host_genotype + annotations: + expected_value: + tag: expected_value + value: genotype + occurrence: + tag: occurrence + value: '1' + description: Observed genotype + title: host genotype + examples: + - value: C57BL/6 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host genotype + rank: 252 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000365 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_height: + name: host_height + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The height of subject + title: host height + examples: + - value: 0.1 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host height + rank: 253 + is_a: core field + slot_uri: MIXS:0000264 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_length: + name: host_length + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: centimeter, millimeter, meter + occurrence: + tag: occurrence + value: '1' + description: The length of subject + title: host length + examples: + - value: 1 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host length + rank: 254 + is_a: core field + slot_uri: MIXS:0000256 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_life_stage: + name: host_life_stage + annotations: + expected_value: + tag: expected_value + value: stage + occurrence: + tag: occurrence + value: '1' + description: Description of life stage of host + title: host life stage + examples: + - value: adult + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host life stage + rank: 255 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000251 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_phenotype: + name: host_phenotype + annotations: + expected_value: + tag: expected_value + value: PATO or HP + occurrence: + tag: occurrence + value: '1' + description: Phenotype of human or other host. For phenotypic quality ontology (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato. For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP + title: host phenotype + examples: + - value: elongated [PATO:0001154] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host phenotype + rank: 256 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000874 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + host_subspecf_genlin: + name: host_subspecf_genlin + annotations: + expected_value: + tag: expected_value + value: Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies, e.g. serovar, biotype, ecotype, variety, cultivar. + occurrence: + tag: occurrence + value: m + description: Information about the genetic distinctness of the host organism below the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar, or any relevant genetic typing schemes like Group I plasmid. Subspecies should not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage name and the lineage rank separated by a colon, e.g., biovar:abc123. + title: host subspecific genetic lineage + examples: + - value: 'serovar:Newport, variety:glabrum, cultivar: Red Delicious' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host subspecific genetic lineage + rank: 257 + is_a: core field + string_serialization: '{rank name}:{text}' + slot_uri: MIXS:0001318 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_symbiont: + name: host_symbiont + annotations: + expected_value: + tag: expected_value + value: species name or common name + occurrence: + tag: occurrence + value: m + description: The taxonomic name of the organism(s) found living in mutualistic, commensalistic, or parasitic symbiosis with the specific host. + title: observed host symbionts + examples: + - value: flukeworms + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - observed host symbionts + rank: 258 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001298 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_taxid: + name: host_taxid + annotations: + expected_value: + tag: expected_value + value: NCBI taxon identifier + occurrence: + tag: occurrence + value: '1' + description: NCBI taxon id of the host, e.g. 9606 + title: host taxid + comments: + - Homo sapiens [NCBITaxon:9606] would be a reasonable has_raw_value + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host taxid + rank: 259 + is_a: core field + slot_uri: MIXS:0000250 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + host_tot_mass: + name: host_tot_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Total mass of the host at collection, the unit depends on host + title: host total mass + examples: + - value: 2500 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host total mass + rank: 260 + is_a: core field + slot_uri: MIXS:0000263 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + host_wet_mass: + name: host_wet_mass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: kilogram, gram + occurrence: + tag: occurrence + value: '1' + description: Measurement of wet mass + title: host wet mass + examples: + - value: 1500 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - host wet mass + rank: 261 + is_a: core field + slot_uri: MIXS:0000567 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + humidity_regm: + name: humidity_regm + annotations: + expected_value: + tag: expected_value + value: humidity value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram per cubic meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: humidity regimen + examples: + - value: 25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - humidity regimen + rank: 21 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000568 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + light_regm: + name: light_regm + annotations: + expected_value: + tag: expected_value + value: exposure type;light intensity;light quality + preferred_unit: + tag: preferred_unit + value: lux; micrometer, nanometer, angstrom + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving exposure to light, including both light intensity and quality. + title: light regimen + examples: + - value: incandescant light;10 lux;450 nanometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - light regimen + rank: 24 + is_a: core field + string_serialization: '{text};{float} {unit};{float} {unit}' + slot_uri: MIXS:0000569 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + mechanical_damage: + name: mechanical_damage + annotations: + expected_value: + tag: expected_value + value: damage type;body site + occurrence: + tag: occurrence + value: m + description: Information about any mechanical damage exerted on the plant; can include multiple damages and sites + title: mechanical damage + examples: + - value: pruning;bark + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mechanical damage + rank: 262 + is_a: core field + string_serialization: '{text};{text}' + slot_uri: MIXS:0001052 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + mineral_nutr_regm: + name: mineral_nutr_regm + annotations: + expected_value: + tag: expected_value + value: mineral nutrient name;mineral nutrient amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple mineral nutrient regimens + title: mineral nutrient regimen + examples: + - value: potassium;15 gram;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mineral nutrient regimen + rank: 263 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000570 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + non_min_nutr_regm: + name: non_min_nutr_regm + annotations: + expected_value: + tag: expected_value + value: non-mineral nutrient name;non-mineral nutrient amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple non-mineral nutrient regimens + title: non-mineral nutrient regimen + examples: + - value: carbon dioxide;10 mole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - non-mineral nutrient regimen + rank: 264 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000571 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pesticide_regm: + name: pesticide_regm + annotations: + expected_value: + tag: expected_value + value: pesticide name;pesticide amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple pesticide regimens + title: pesticide regimen + examples: + - value: pyrethrum;0.6 milligram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pesticide regimen + rank: 265 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000573 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ph_regm: + name: ph_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Information about treatment involving exposure of plants to varying levels of ph of the growth media, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimen + title: pH regimen + examples: + - value: 7.6;R2/2018-05-11:T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH regimen + rank: 266 + is_a: core field + string_serialization: '{float};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001056 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + plant_growth_med: + name: plant_growth_med + annotations: + expected_value: + tag: expected_value + value: EO or enumeration + occurrence: + tag: occurrence + value: '1' + description: Specification of the media for growing the plants or tissue cultured samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in vitro liquid culture medium. Recommended value is a specific value from EO:plant growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147) or other controlled vocabulary + title: plant growth medium + examples: + - value: hydroponic plant culture media [EO:0007067] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - plant growth medium + rank: 267 + is_a: core field + slot_uri: MIXS:0001057 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + plant_product: + name: plant_product + annotations: + expected_value: + tag: expected_value + value: product name + occurrence: + tag: occurrence + value: '1' + description: Substance produced by the plant, where the sample was obtained from + title: plant product + examples: + - value: xylem sap [PO:0025539] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - plant product + rank: 268 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001058 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + plant_sex: + name: plant_sex + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Sex of the reproductive parts on the whole plant, e.g. pistillate, staminate, monoecieous, hermaphrodite. + title: plant sex + examples: + - value: Hermaphroditic + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - plant sex + rank: 269 + is_a: core field + slot_uri: MIXS:0001059 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: plant_sex_enum + plant_struc: + name: plant_struc + annotations: + expected_value: + tag: expected_value + value: PO + occurrence: + tag: occurrence + value: '1' + description: Name of plant structure the sample was obtained from; for Plant Ontology (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO, e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the sex of it can be recorded here. + title: plant structure + examples: + - value: epidermis [PO:0005679] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - plant structure + rank: 270 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0001060 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + radiation_regm: + name: radiation_regm + annotations: + expected_value: + tag: expected_value + value: radiation type name;radiation amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: rad, gray + occurrence: + tag: occurrence + value: m + description: Information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple radiation regimens + title: radiation regimen + examples: + - value: gamma radiation;60 gray;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - radiation regimen + rank: 271 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000575 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + rainfall_regm: + name: rainfall_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: millimeter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to a given amount of rainfall, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: rainfall regimen + examples: + - value: 15 millimeter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rainfall regimen + rank: 272 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000576 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + root_cond: + name: root_cond + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Relevant rooting conditions such as field plot size, sowing density, container dimensions, number of plants per container. + title: rooting conditions + examples: + - value: http://himedialabs.com/TD/PT158.pdf + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting conditions + rank: 273 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001061 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + root_med_carbon: + name: root_med_carbon + annotations: + expected_value: + tag: expected_value + value: carbon source name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Source of organic carbon in the culture rooting medium; e.g. sucrose. + title: rooting medium carbon + examples: + - value: sucrose + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium carbon + rank: 274 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000577 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + root_med_macronutr: + name: root_med_macronutr + annotations: + expected_value: + tag: expected_value + value: macronutrient name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S); e.g. KH2PO4 (170¬†mg/L). + title: rooting medium macronutrients + examples: + - value: KH2PO4;170¬†milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium macronutrients + rank: 275 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000578 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + root_med_micronutr: + name: root_med_micronutr + annotations: + expected_value: + tag: expected_value + value: micronutrient name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, Mo); e.g. H3BO3 (6.2¬†mg/L). + title: rooting medium micronutrients + examples: + - value: H3BO3;6.2¬†milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium micronutrients + rank: 276 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000579 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + root_med_ph: + name: root_med_ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the culture rooting medium; e.g. 5.5. + title: rooting medium pH + examples: + - value: '7.5' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium pH + rank: 277 + is_a: core field + slot_uri: MIXS:0001062 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + root_med_regl: + name: root_med_regl + annotations: + expected_value: + tag: expected_value + value: regulator name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Growth regulators in the culture rooting medium such as cytokinins, auxins, gybberellins, abscisic acid; e.g. 0.5¬†mg/L NAA. + title: rooting medium regulators + examples: + - value: abscisic acid;0.75 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium regulators + rank: 278 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000581 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + root_med_solid: + name: root_med_solid + annotations: + expected_value: + tag: expected_value + value: name + occurrence: + tag: occurrence + value: '1' + description: Specification of the solidifying agent in the culture rooting medium; e.g. agar. + title: rooting medium solidifier + examples: + - value: agar + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium solidifier + rank: 279 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001063 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + root_med_suppl: + name: root_med_suppl + annotations: + expected_value: + tag: expected_value + value: supplement name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Organic supplements of the culture rooting medium, such as vitamins, amino acids, organic acids, antibiotics activated charcoal; e.g. nicotinic acid (0.5¬†mg/L). + title: rooting medium organic supplements + examples: + - value: nicotinic acid;0.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - rooting medium organic supplements + rank: 280 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000580 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salt_regm: + name: salt_regm + annotations: + expected_value: + tag: expected_value + value: salt name;salt amount;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple salt regimens + title: salt regimen + examples: + - value: NaCl;5 gram per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salt regimen + rank: 281 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000582 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_capt_status: + name: samp_capt_status + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Reason for the sample + title: sample capture status + examples: + - value: farm sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample capture status + rank: 282 + is_a: core field + slot_uri: MIXS:0000860 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_capt_status_enum + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_dis_stage: + name: samp_dis_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of the disease at the time of sample collection, e.g. inoculation, penetration, infection, growth and reproduction, dissemination of pathogen. + title: sample disease stage + examples: + - value: infection + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample disease stage + rank: 283 + is_a: core field + slot_uri: MIXS:0000249 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: samp_dis_stage_enum + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + season_environment: + name: season_environment + annotations: + expected_value: + tag: expected_value + value: seasonal environment name;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Treatment involving an exposure to a particular season (e.g. Winter, summer, rabi, rainy etc.), treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment + title: seasonal environment + examples: + - value: rainy;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - seasonal environment + rank: 284 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001068 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + standing_water_regm: + name: standing_water_regm + annotations: + expected_value: + tag: expected_value + value: standing water type;treatment interval and duration + occurrence: + tag: occurrence + value: m + description: Treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: standing water regimen + examples: + - value: standing water;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - standing water regimen + rank: 286 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001069 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tiss_cult_growth_med: + name: tiss_cult_growth_med + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url or free text + occurrence: + tag: occurrence + value: '1' + description: Description of plant tissue culture growth media used + title: tissue culture growth media + examples: + - value: https://link.springer.com/content/pdf/10.1007/BF02796489.pdf + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - tissue culture growth media + rank: 287 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001070 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + water_temp_regm: + name: water_temp_regm + annotations: + expected_value: + tag: expected_value + value: measurement value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to water with varying degree of temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: water temperature regimen + examples: + - value: 15 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water temperature regimen + rank: 288 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000590 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + watering_regm: + name: watering_regm + description: Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: watering regimen + examples: + - value: 1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + - value: 75% water holding capacity; constant + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000591 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + SedimentInterface: + name: SedimentInterface + description: sediment dh_interface + title: Sediment + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - alkalinity + - alkyl_diethers + - aminopept_act + - ammonium + - bacteria_carb_prod + - biomass + - bishomohopanol + - bromide + - calcium + - carb_nitro_ratio + - chem_administration + - chloride + - chlorophyll + - collection_date + - density + - depth + - diether_lipids + - diss_carb_dioxide + - diss_hydrogen + - diss_inorg_carb + - diss_org_carb + - diss_org_nitro + - diss_oxygen + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - geo_loc_name + - glucosidase_act + - horizon_meth + - lat_lon + - magnesium + - mean_frict_vel + - mean_peak_frict_vel + - methane + - misc_param + - n_alkanes + - nitrate + - nitrite + - nitro + - org_carb + - org_matter + - org_nitro + - organism_count + - oxy_stat_samp + - part_org_carb + - particle_class + - perturbation + - petroleum_hydrocarb + - ph + - ph_meth + - phaeopigments + - phosphate + - phosplipid_fatt_acid + - porosity + - potassium + - pressure + - redox_potential + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - sediment_type + - silicate + - size_frac + - sodium + - specific_ecosystem + - sulfate + - sulfide + - temp + - tidal_stage + - tot_carb + - tot_depth_water_col + - tot_nitro_content + - tot_org_carb + - turbidity + - water_content + slot_usage: + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alkyl_diethers: + name: alkyl_diethers + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of alkyl diethers + title: alkyl diethers + examples: + - value: 0.005 mole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkyl diethers + rank: 2 + is_a: core field + slot_uri: MIXS:0000490 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + aminopept_act: + name: aminopept_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of aminopeptidase activity + title: aminopeptidase activity + examples: + - value: 0.269 mole per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aminopeptidase activity + rank: 3 + is_a: core field + slot_uri: MIXS:0000172 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bacteria_carb_prod: + name: bacteria_carb_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial carbon production + title: bacterial carbon production + examples: + - value: 2.53 microgram per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bacterial carbon production + rank: 5 + is_a: core field + slot_uri: MIXS:0000173 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biomass: + name: biomass + annotations: + expected_value: + tag: expected_value + value: biomass type;measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram + occurrence: + tag: occurrence + value: m + description: Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements + title: biomass + examples: + - value: total;20 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biomass + rank: 6 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000174 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + bishomohopanol: + name: bishomohopanol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, microgram per gram + occurrence: + tag: occurrence + value: '1' + description: Concentration of bishomohopanol + title: bishomohopanol + examples: + - value: 14 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bishomohopanol + rank: 7 + is_a: core field + slot_uri: MIXS:0000175 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bromide: + name: bromide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of bromide + title: bromide + examples: + - value: 0.05 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bromide + rank: 8 + is_a: core field + slot_uri: MIXS:0000176 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + carb_nitro_ratio: + name: carb_nitro_ratio + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ratio of amount or concentrations of carbon to nitrogen + title: carbon/nitrogen ratio + examples: + - value: '0.417361111' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon/nitrogen ratio + rank: 44 + is_a: core field + slot_uri: MIXS:0000310 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: float + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chlorophyll: + name: chlorophyll + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter, microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of chlorophyll + title: chlorophyll + examples: + - value: 5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chlorophyll + rank: 11 + is_a: core field + slot_uri: MIXS:0000177 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - density + rank: 12 + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$ + diether_lipids: + name: diether_lipids + annotations: + expected_value: + tag: expected_value + value: diether lipid name;measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of diether lipids; can include multiple types of diether lipids + title: diether lipids + examples: + - value: 0.2 nanogram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - diether lipids + rank: 13 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000178 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_hydrogen: + name: diss_hydrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved hydrogen + title: dissolved hydrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved hydrogen + rank: 15 + is_a: core field + slot_uri: MIXS:0000179 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic carbon + rank: 17 + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_nitro: + name: diss_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 + title: dissolved organic nitrogen + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic nitrogen + rank: 18 + is_a: core field + slot_uri: MIXS:0000162 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen: + name: diss_oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen + title: dissolved oxygen + examples: + - value: 175 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen + rank: 19 + is_a: core field + slot_uri: MIXS:0000119 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + glucosidase_act: + name: glucosidase_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mol per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of glucosidase activity + title: glucosidase activity + examples: + - value: 5 mol per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - glucosidase activity + rank: 20 + is_a: core field + slot_uri: MIXS:0000137 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + magnesium: + name: magnesium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter, parts per million, micromole per kilogram + occurrence: + tag: occurrence + value: '1' + description: Concentration of magnesium in the sample + title: magnesium + examples: + - value: 52.8 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - magnesium + rank: 21 + is_a: core field + slot_uri: MIXS:0000431 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_frict_vel: + name: mean_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean friction velocity + title: mean friction velocity + examples: + - value: 0.5 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean friction velocity + rank: 22 + is_a: core field + slot_uri: MIXS:0000498 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_peak_frict_vel: + name: mean_peak_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean peak friction velocity + title: mean peak friction velocity + examples: + - value: 1 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean peak friction velocity + rank: 23 + is_a: core field + slot_uri: MIXS:0000502 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + methane: + name: methane + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, parts per billion, parts per million + occurrence: + tag: occurrence + value: '1' + description: Methane (gas) amount or concentration at the time of sampling + title: methane + examples: + - value: 1800 parts per billion + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - methane + rank: 24 + is_a: core field + slot_uri: MIXS:0000101 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + n_alkanes: + name: n_alkanes + annotations: + expected_value: + tag: expected_value + value: n-alkane name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of n-alkanes; can include multiple n-alkanes + title: n-alkanes + examples: + - value: n-hexadecane;100 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - n-alkanes + rank: 25 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000503 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitro: + name: nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrogen (total) + title: nitrogen + examples: + - value: 4.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrogen + rank: 28 + is_a: core field + slot_uri: MIXS:0000504 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_carb: + name: org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic carbon + title: organic carbon + examples: + - value: 1.5 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic carbon + rank: 29 + is_a: core field + slot_uri: MIXS:0000508 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic matter + rank: 45 + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic nitrogen + rank: 46 + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + part_org_carb: + name: part_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic carbon + title: particulate organic carbon + examples: + - value: 1.92 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - particulate organic carbon + rank: 31 + is_a: core field + slot_uri: MIXS:0000515 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + particle_class: + name: particle_class + annotations: + expected_value: + tag: expected_value + value: particle name;measurement value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: m + description: Particles are classified, based on their size, into six general categories:clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values + title: particle classification + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - particle classification + rank: 32 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000206 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + petroleum_hydrocarb: + name: petroleum_hydrocarb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of petroleum hydrocarbon + title: petroleum hydrocarbon + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - petroleum hydrocarbon + rank: 34 + is_a: core field + slot_uri: MIXS:0000516 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phaeopigments: + name: phaeopigments + annotations: + expected_value: + tag: expected_value + value: phaeopigment name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of phaeopigments; can include multiple phaeopigments + title: phaeopigments + examples: + - value: 2.5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phaeopigments + rank: 35 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000180 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + phosplipid_fatt_acid: + name: phosplipid_fatt_acid + annotations: + expected_value: + tag: expected_value + value: phospholipid fatty acid name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per gram, mole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of phospholipid fatty acids; can include multiple values + title: phospholipid fatty acid + examples: + - value: 2.98 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phospholipid fatty acid + rank: 36 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000181 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + porosity: + name: porosity + annotations: + expected_value: + tag: expected_value + value: measurement value or range + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Porosity of deposited sediment is volume of voids divided by the total volume of sample + title: porosity + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - porosity + rank: 37 + is_a: core field + string_serialization: '{float} - {float} {unit}' + slot_uri: MIXS:0000211 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + redox_potential: + name: redox_potential + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millivolt + occurrence: + tag: occurrence + value: '1' + description: Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential + title: redox potential + examples: + - value: 300 millivolt + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - redox potential + rank: 40 + is_a: core field + slot_uri: MIXS:0000182 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + sediment_type: + name: sediment_type + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Information about the sediment type based on major constituents + title: sediment type + examples: + - value: biogenous + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sediment type + rank: 42 + is_a: core field + slot_uri: MIXS:0001078 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: sediment_type_enum + silicate: + name: silicate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of silicate + title: silicate + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - silicate + rank: 43 + is_a: core field + slot_uri: MIXS:0000184 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tidal_stage: + name: tidal_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of tide + title: tidal stage + examples: + - value: high tide + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - tidal stage + rank: 45 + is_a: core field + slot_uri: MIXS:0000750 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: tidal_stage_enum + tot_carb: + name: tot_carb + description: Total carbon content + title: total carbon + todos: + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + examples: + - value: 1 ug/L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 47 + is_a: core field + slot_uri: MIXS:0000525 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_depth_water_col: + name: tot_depth_water_col + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Measurement of total depth of water column + title: total depth of water column + examples: + - value: 500 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total depth of water column + rank: 46 + is_a: core field + slot_uri: MIXS:0000634 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro_content: + name: tot_nitro_content + description: Total nitrogen content of the sample + title: total nitrogen content + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 48 + is_a: core field + slot_uri: MIXS:0000530 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_org_carb: + name: tot_org_carb + description: 'Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content' + title: total organic carbon + todos: + - check description. How are they different? + - check description. How are they different? + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 50 + is_a: core field + slot_uri: MIXS:0000533 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + turbidity: + name: turbidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: formazin turbidity unit, formazin nephelometric units + occurrence: + tag: occurrence + value: '1' + description: Measure of the amount of cloudiness or haziness in water caused by individual particles + title: turbidity + examples: + - value: 0.3 nephelometric turbidity units + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - turbidity + rank: 47 + is_a: core field + slot_uri: MIXS:0000191 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_content: + name: water_content + annotations: + expected_value: + tag: expected_value + value: string + preferred_unit: + tag: preferred_unit + value: gram per gram or cubic centimeter per cubic centimeter + description: Water content measurement + title: water content + todos: + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + examples: + - value: 75% + - value: 75 % + - value: 0.75 g water/g dry soil + - value: 75% water holding capacity + - value: 1.1 g fresh weight/ dry weight + - value: 10% water filled pore space + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 39 + is_a: core field + string_serialization: '{float or pct} {unit}' + slot_uri: MIXS:0000185 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$ + SoilInterface: + name: SoilInterface + description: soil dh_interface + title: Soil + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + - SoilMixsInspiredMixin + slots: + - agrochem_addition + - air_temp_regm + - al_sat + - al_sat_meth + - ammonium_nitrogen + - annual_precpt + - annual_temp + - biotic_regm + - biotic_relationship + - carb_nitro_ratio + - chem_administration + - climate_environment + - collection_date + - collection_date_inc + - collection_time + - collection_time_inc + - crop_rotation + - cur_land_use + - cur_vegetation + - cur_vegetation_meth + - depth + - drainage_class + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - experimental_factor_other + - extreme_event + - fao_class + - filter_method + - fire + - flooding + - gaseous_environment + - geo_loc_name + - growth_facil + - heavy_metals + - heavy_metals_meth + - horizon_meth + - humidity_regm + - isotope_exposure + - lat_lon + - lbc_thirty + - lbceq + - light_regm + - link_class_info + - link_climate_info + - local_class + - local_class_meth + - manganese + - micro_biomass_c_meth + - micro_biomass_c_meth + - micro_biomass_meth + - micro_biomass_n_meth + - micro_biomass_n_meth + - microbial_biomass + - microbial_biomass_c + - microbial_biomass_c + - microbial_biomass_n + - microbial_biomass_n + - misc_param + - nitrate_nitrogen + - nitrite_nitrogen + - non_microb_biomass + - non_microb_biomass_method + - org_matter + - org_nitro + - org_nitro_method + - other_treatment + - oxy_stat_samp + - ph + - ph_meth + - phosphate + - prev_land_use_meth + - previous_land_use + - profile_position + - salinity + - salinity_meth + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_temp + - sample_link + - season_precpt + - season_temp + - sieving + - size_frac_low + - size_frac_up + - slope_aspect + - slope_gradient + - soil_horizon + - soil_text_measure + - soil_texture_meth + - soil_type + - soil_type_meth + - specific_ecosystem + - start_date_inc + - start_time_inc + - store_cond + - temp + - tillage + - tot_carb + - tot_nitro_cont_meth + - tot_nitro_content + - tot_org_c_meth + - tot_org_carb + - tot_phosp + - water_cont_soil_meth + - water_content + - watering_regm + - zinc + slot_usage: + agrochem_addition: + name: agrochem_addition + annotations: + expected_value: + tag: expected_value + value: agrochemical name;agrochemical amount;timestamp + preferred_unit: + tag: preferred_unit + value: gram, mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Addition of fertilizers, pesticides, etc. - amount and time of applications + title: history/agrochemical additions + examples: + - value: roundup;5 milligram per liter;2018-06-21 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - history/agrochemical additions + rank: 2 + is_a: core field + string_serialization: '{text};{float} {unit};{timestamp}' + slot_uri: MIXS:0000639 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: .* + air_temp_regm: + name: air_temp_regm + annotations: + expected_value: + tag: expected_value + value: temperature value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying temperatures; should include the temperature, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include different temperature regimens + title: air temperature regimen + examples: + - value: 25 degree Celsius;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - air temperature regimen + rank: 16 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000551 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + al_sat: + name: al_sat + description: The relative abundance of aluminum in the sample + title: aluminum saturation/ extreme unusual properties + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate? + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement. + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate? + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement. + comments: + - Aluminum saturation is the percentage of the CEC occupies by aluminum. Like all cations, aluminum held by the cation exchange complex is in equilibrium with aluminum in the soil solution. + examples: + - value: '0.27' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 3 + is_a: core field + slot_uri: MIXS:0000607 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + al_sat_meth: + name: al_sat_meth + description: Reference or method used in determining Aluminum saturation + title: aluminum saturation method/ extreme unusual properties + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? + comments: + - Required when aluminum saturation is provided. + examples: + - value: https://doi.org/10.1371/journal.pone.0176357 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 4 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000324 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + ammonium_nitrogen: + name: ammonium_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium nitrogen in the sample + title: ammonium nitrogen + examples: + - value: 2.3 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - ammonium_nitrogen + - NH4-N + rank: 1005 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + annual_precpt: + name: annual_precpt + description: The average of all annual precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps. + title: mean annual precipitation + todos: + - This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot + - This is no longer matching the listed IRI from GSC, added example. When NMDC has its own slots, map this to the MIxS slot + examples: + - value: 8.94 inch + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: core field + slot_uri: MIXS:0000644 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + annual_temp: + name: annual_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Mean annual temperature + title: mean annual temperature + examples: + - value: 12.5 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean annual temperature + rank: 6 + is_a: core field + slot_uri: MIXS:0000642 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biotic_regm: + name: biotic_regm + annotations: + expected_value: + tag: expected_value + value: free text + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving use of biotic factors, such as bacteria, viruses or fungi. + title: biotic regimen + examples: + - value: sample inoculated with Rhizobium spp. Culture + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biotic regimen + rank: 13 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0001038 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + biotic_relationship: + name: biotic_relationship + annotations: + expected_value: + tag: expected_value + value: enumeration + description: Description of relationship(s) between the subject organism and other organism(s) it is associated with. E.g., parasite on species X; mutualist with species Y. The target organism is the subject of the relationship, and the other organism(s) is the object + title: observed biotic relationship + examples: + - value: free living + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - observed biotic relationship + rank: 22 + is_a: nucleic acid sequence source field + slot_uri: MIXS:0000028 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: biotic_relationship_enum + carb_nitro_ratio: + name: carb_nitro_ratio + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ratio of amount or concentrations of carbon to nitrogen + title: carbon/nitrogen ratio + examples: + - value: '0.417361111' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon/nitrogen ratio + rank: 44 + is_a: core field + slot_uri: MIXS:0000310 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: float + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + climate_environment: + name: climate_environment + description: Treatment involving an exposure to a particular climate; treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple climates + title: climate environment + todos: + - description says "can include multiple climates" but multivalued is set to false + - add examples, i need to see some examples to add correctly formatted example. + - description says "can include multiple climates" but multivalued is set to false + - add examples, i need to see some examples to add correctly formatted example. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 19 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0001040 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + collection_date_inc: + name: collection_date_inc + description: Date the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 2 + string_serialization: '{date, arbitrary precision}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + multivalued: false + collection_time: + name: collection_time + description: The time of sampling, either as an instance (single point) or interval. + title: collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 1 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + collection_time_inc: + name: collection_time_inc + description: Time the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 3 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + crop_rotation: + name: crop_rotation + annotations: + expected_value: + tag: expected_value + value: crop rotation status;schedule + occurrence: + tag: occurrence + value: '1' + description: Whether or not crop is rotated, and if yes, rotation schedule + title: history/crop rotation + examples: + - value: yes;R2/2017-01-01/2018-12-31/P6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - history/crop rotation + rank: 7 + is_a: core field + string_serialization: '{boolean};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000318 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + cur_land_use: + name: cur_land_use + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Present state of sample site + title: current land use + examples: + - value: conifers + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - current land use + rank: 8 + is_a: core field + slot_uri: MIXS:0001080 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: cur_land_use_enum + cur_vegetation: + name: cur_vegetation + description: Vegetation classification from one or more standard classification systems, or agricultural crop + title: current vegetation + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Recommend changing this from text value to some king of ontology? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Recommend changing this from text value to some kind of ontology? + comments: + - Values provided here can be specific species of vegetation or vegetation regions + - See for vegetation regions- https://education.nationalgeographic.org/resource/vegetation-region + examples: + - value: deciduous forest + - value: forest + - value: Bauhinia variegata + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 9 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000312 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + cur_vegetation_meth: + name: cur_vegetation_meth + description: Reference or method used in vegetation classification + title: current vegetation method + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided. + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - I'm not sure this is a DOI, PMID, or URI. Should pool the community and find out how they accomplish this if provided. + comments: + - Required when current vegetation is provided. + examples: + - value: https://doi.org/10.1111/j.1654-109X.2011.01154.x + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 10 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000314 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$ + drainage_class: + name: drainage_class + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Drainage classification from a standard system such as the USDA system + title: drainage classification + examples: + - value: well + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - drainage classification + rank: 11 + is_a: core field + slot_uri: MIXS:0001085 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: drainage_class_enum + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: EcosystemEnum + recommended: true + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: EcosystemCategoryEnum + recommended: true + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: EcosystemSubtypeEnum + recommended: true + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: EcosystemTypeEnum + recommended: true + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: EnvBroadScaleSoilEnum + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: EnvLocalScaleSoilEnum + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: EnvMediumSoilEnum + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + experimental_factor_other: + name: experimental_factor_other + description: Other details about your sample that you feel can't be accurately represented in the available columns. + title: experimental factor- other + comments: + - This slot accepts open-ended text about your sample. + - We recommend using key:value pairs. + - Provided pairs will be considered for inclusion as future slots/terms in this data collection template. + examples: + - value: 'experimental treatment: value' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:experimental_factor|additional_info + rank: 7 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + extreme_event: + name: extreme_event + annotations: + expected_value: + tag: expected_value + value: date, string + description: Unusual physical events that may have affected microbial populations + title: history/extreme events + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + examples: + - value: 1980-05-18, volcanic eruption + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 13 + is_a: core field + slot_uri: MIXS:0000320 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + fao_class: + name: fao_class + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Soil classification from the FAO World Reference Database for Soil Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups + title: soil_taxonomic/FAO classification + examples: + - value: Luvisols + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil_taxonomic/FAO classification + rank: 14 + is_a: core field + slot_uri: MIXS:0001083 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: fao_class_enum + filter_method: + name: filter_method + description: Type of filter used or how the sample was filtered + title: filter method + comments: + - describe the filter or provide a catalog number and manufacturer + examples: + - value: C18 + - value: Basix PES, 13-100-106 FisherSci + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:filter_type + rank: 6 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + fire: + name: fire + annotations: + expected_value: + tag: expected_value + value: date string + description: Historical and/or physical evidence of fire + title: history/fire + todos: + - is "to" acceptable? Is there a better way to request that be written? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - is "to" acceptable? Is there a better way to request that be written? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + comments: + - Provide the date the fire occurred. If extended burning occurred provide the date range. + examples: + - value: '1871-10-10' + - value: 1871-10-01 to 1871-10-31 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 15 + is_a: core field + slot_uri: MIXS:0001086 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?(\s+to\s+[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?)?$ + flooding: + name: flooding + annotations: + expected_value: + tag: expected_value + value: date string + description: Historical and/or physical evidence of flooding + title: history/flooding + todos: + - is "to" acceptable? Is there a better way to request that be written? + - What about if the "day" isn't known? Is this ok? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - is "to" acceptable? Is there a better way to request that be written? + - What about if the "day" isn't known? Is this ok? + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + comments: + - Provide the date the flood occurred. If extended flooding occurred provide the date range. + examples: + - value: '1927-04-15' + - value: 1927-04 to 1927-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 16 + is_a: core field + slot_uri: MIXS:0000319 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + gaseous_environment: + name: gaseous_environment + description: Use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens + title: gaseous environment + todos: + - would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value + - did I do this right? keep the example that's provided and add another? so as to not override + - would like to see usage examples for this slot. Requiring micromole/L seems too limiting and doesn't match expected_value value + - did I do this right? keep the example that's provided and add another? so as to not override + examples: + - value: CO2; 500ppm above ambient; constant + - value: nitric oxide;0.5 micromole per liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 20 + is_a: core field + string_serialization: '{text};{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000558 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + growth_facil: + name: growth_facil + annotations: + expected_value: + tag: expected_value + value: free text or CO + occurrence: + tag: occurrence + value: '1' + description: 'Type of facility/location where the sample was harvested; controlled vocabulary: growth chamber, open top chamber, glasshouse, experimental garden, field.' + title: growth facility + notes: + - 'Removed from description: Alternatively use Crop Ontology (CO) terms' + examples: + - value: Growth chamber [CO_715:0000189] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - growth facility + rank: 1 + is_a: core field + string_serialization: '{text}|{termLabel} {[termID]}' + slot_uri: MIXS:0001043 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: GrowthFacilEnum + required: true + heavy_metals: + name: heavy_metals + description: Heavy metals present in the sample and their concentrations. + title: heavy metals/ extreme unusual properties + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate? + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement. + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - Example & validation. Can we make rules that 27% & 27 % & 0.27 will validate? + - I think it's weird the way GSC writes the title. I recommend this change. Thoughts? I would argue this isn't an extreme unusual property. It's just a biogeochemical measurement. + notes: + - Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal. + - Changed to multi-valued. In MIxS, you add another column to denote multiple heavy metals. We don't have that ability in the submission portal. + comments: + - For multiple heavy metals and concentrations, separate by ; + examples: + - value: mercury 0.09 micrograms per gram + - value: mercury 0.09 ug/g; chromium 0.03 ug/g + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 17 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000652 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + heavy_metals_meth: + name: heavy_metals_meth + description: Reference or method used in determining heavy metals + title: heavy metals method/ extreme unusual properties + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + comments: + - Required when heavy metals are provided + - If different methods are used for multiple metals, indicate the metal and method. Separate metals by ; + examples: + - value: https://doi.org/10.3390/ijms9040434 + - value: mercury https://doi.org/10.1007/BF01056090; chromium https://doi.org/10.1007/s00216-006-0322-8 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 18 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000343 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: soil horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + humidity_regm: + name: humidity_regm + annotations: + expected_value: + tag: expected_value + value: humidity value;treatment interval and duration + preferred_unit: + tag: preferred_unit + value: gram per cubic meter + occurrence: + tag: occurrence + value: m + description: Information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: humidity regimen + examples: + - value: 25 gram per cubic meter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - humidity regimen + rank: 21 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000568 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + isotope_exposure: + name: isotope_exposure + description: List isotope exposure or addition applied to your sample. + title: isotope exposure/addition + todos: + - Can we make the H218O correctly super and subscripted? + comments: + - This is required when your experimental design includes the use of isotopically labeled compounds + examples: + - value: 13C glucose + - value: H218O + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:chem_administration + rank: 16 + string_serialization: '{termLabel} {[termID]}; {timestamp}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]; ([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + multivalued: false + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + lbc_thirty: + name: lbc_thirty + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ppm CaCO3/pH + occurrence: + tag: occurrence + value: '1' + description: lime buffer capacity, determined after 30 minute incubation + title: lime buffer capacity (at 30 minutes) + comments: + - This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit + examples: + - value: 543 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + - https://secure.caes.uga.edu/extension/publications/files/pdf/C%20874_5.PDF + aliases: + - lbc_thirty + - lbc30 + - lime buffer capacity (at 30 minutes) + rank: 1001 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + lbceq: + name: lbceq + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ppm CaCO3/pH + occurrence: + tag: occurrence + value: '1' + description: lime buffer capacity, determined at equilibrium after 5 day incubation + title: lime buffer capacity (after 5 day incubation) + comments: + - This is the mass of lime, in mg, needed to raise the pH of one kg of soil by one pH unit + examples: + - value: 1575 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - lbceq + - lime buffer capacity (at 5-day equilibrium) + rank: 1002 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + light_regm: + name: light_regm + annotations: + expected_value: + tag: expected_value + value: exposure type;light intensity;light quality + preferred_unit: + tag: preferred_unit + value: lux; micrometer, nanometer, angstrom + occurrence: + tag: occurrence + value: '1' + description: Information about treatment(s) involving exposure to light, including both light intensity and quality. + title: light regimen + examples: + - value: incandescant light;10 lux;450 nanometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - light regimen + rank: 24 + is_a: core field + string_serialization: '{text};{float} {unit};{float} {unit}' + slot_uri: MIXS:0000569 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + link_class_info: + name: link_class_info + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Link to digitized soil maps or other soil classification information + title: link to classification information + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - link to classification information + rank: 20 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000329 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + link_climate_info: + name: link_climate_info + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Link to climate resource + title: link to climate information + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - link to climate information + rank: 21 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000328 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + local_class: + name: local_class + annotations: + expected_value: + tag: expected_value + value: local classification name + occurrence: + tag: occurrence + value: '1' + description: Soil classification based on local soil classification system + title: soil_taxonomic/local classification + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil_taxonomic/local classification + rank: 22 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000330 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + local_class_meth: + name: local_class_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the local soil classification + title: soil_taxonomic/local classification method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil_taxonomic/local classification method + rank: 24 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000331 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + manganese: + name: manganese + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg (ppm) + occurrence: + tag: occurrence + value: '1' + description: Concentration of manganese in the sample + title: manganese + examples: + - value: 24.7 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - manganese + rank: 1003 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + micro_biomass_c_meth: + name: micro_biomass_c_meth + description: Reference or method used in determining microbial biomass carbon + title: microbial biomass carbon method + todos: + - How should we separate values? | or ;? lets be consistent + comments: + - required if "microbial_biomass_c" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:micro_biomass_meth + rank: 1004 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + micro_biomass_meth: + name: micro_biomass_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining microbial biomass + title: microbial biomass method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - microbial biomass method + rank: 43 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000339 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + micro_biomass_n_meth: + name: micro_biomass_n_meth + description: Reference or method used in determining microbial biomass nitrogen + title: microbial biomass nitrogen method + comments: + - required if "microbial_biomass_n" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:micro_biomass_meth + rank: 1004 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + microbial_biomass: + name: microbial_biomass + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram per kilogram soil + occurrence: + tag: occurrence + value: '1' + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. If you keep this, you would need to have correction factors used for conversion to the final units + title: microbial biomass + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - microbial biomass + rank: 42 + is_a: core field + slot_uri: MIXS:0000650 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + microbial_biomass_c: + name: microbial_biomass_c + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass carbon + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug C/g dry soil + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 1004 + string_serialization: '{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + multivalued: false + microbial_biomass_n: + name: microbial_biomass_n + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass nitrogen + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug N/g dry soil + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 1004 + string_serialization: '{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + multivalued: false + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate_nitrogen: + name: nitrate_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate nitrogen in the sample + title: nitrate_nitrogen + comments: + - often below some specified limit of detection + examples: + - value: 0.29 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - nitrate_nitrogen + - NO3-N + rank: 1006 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + nitrite_nitrogen: + name: nitrite_nitrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite nitrogen in the sample + title: nitrite_nitrogen + examples: + - value: 1.2 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - nitrite_nitrogen + - NO2-N + rank: 1007 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + non_microb_biomass: + name: non_microb_biomass + description: Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ; + title: non-microbial biomass + examples: + - value: insect 0.23 ug; plant 1g + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:biomass|microbial_biomass + rank: 8 + string_serialization: '{text};{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + multivalued: false + non_microb_biomass_method: + name: non_microb_biomass_method + description: Reference or method used in determining biomass + title: non-microbial biomass method + comments: + - required if "non-microbial biomass" is provided + examples: + - value: https://doi.org/10.1038/s41467-021-26181-3 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 9 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic matter + rank: 45 + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic nitrogen + rank: 46 + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro_method: + name: org_nitro_method + description: Method used for obtaining organic nitrogen + title: organic nitrogen method + comments: + - required if "org_nitro" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(85)90144-0 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:org_nitro|tot_nitro_cont_meth + rank: 14 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + other_treatment: + name: other_treatment + description: Other treatments applied to your samples that are not applicable to the provided fields + title: other treatments + comments: + - This is an open text field to provide any treatments that cannot be captured in the provided slots. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:additional_info + rank: 15 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + prev_land_use_meth: + name: prev_land_use_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining previous land use and dates + title: history/previous land use method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - history/previous land use method + rank: 26 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000316 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + previous_land_use: + name: previous_land_use + annotations: + expected_value: + tag: expected_value + value: land use name;date + occurrence: + tag: occurrence + value: '1' + description: Previous land use and dates + title: history/previous land use + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - history/previous land use + rank: 27 + is_a: core field + string_serialization: '{text};{timestamp}' + slot_uri: MIXS:0000315 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^\S+.*\S+;([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + profile_position: + name: profile_position + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Cross-sectional position in the hillslope where sample was collected.sample area position in relation to surrounding areas + title: profile position + examples: + - value: summit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - profile position + rank: 28 + is_a: core field + slot_uri: MIXS:0001084 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: profile_position_enum + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salinity_meth: + name: salinity_meth + description: Reference or method used in determining salinity + title: salinity method + examples: + - value: https://doi.org/10.1007/978-1-61779-986-0_28 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 55 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000341 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + season_precpt: + name: season_precpt + description: The average of all seasonal precipitation values known, or an estimated equivalent value derived by such methods as regional indexes or Isohyetal maps. + title: average seasonal precipitation + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - check validation & examples. always mm? so value only? Or value + unit + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - check validation & examples. always mm? so value only? Or value + unit + notes: + - mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average + - mean and average are the same thing, but it seems like bad practice to not be consistent. Changed mean to average + comments: + - Seasons are defined as spring (March, April, May), summer (June, July, August), autumn (September, October, November) and winter (December, January, February). + examples: + - value: 0.4 inch + - value: 10.16 mm + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 29 + is_a: core field + slot_uri: MIXS:0000645 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + season_temp: + name: season_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Mean seasonal temperature + title: mean seasonal temperature + examples: + - value: 18 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean seasonal temperature + rank: 30 + is_a: core field + slot_uri: MIXS:0000643 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sieving: + name: sieving + description: Collection design of pooled samples and/or sieve size and amount of sample sieved + title: composite design/sieving + todos: + - check validation and examples + - check validation and examples + comments: + - Describe how samples were composited or sieved. + - Use 'sample link' to indicate which samples were combined. + examples: + - value: combined 2 cores + - value: 4mm sieved + - value: 4 mm sieved and homogenized + - value: 50 g + - value: 5 cores + - value: 2 mm sieved + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: core field + string_serialization: '{{text}|{float} {unit}};{float} {unit}' + slot_uri: MIXS:0000322 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + size_frac_low: + name: size_frac_low + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample + title: size-fraction lower threshold + examples: + - value: 0.2 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size-fraction lower threshold + rank: 10 + is_a: core field + slot_uri: MIXS:0000735 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac_up: + name: size_frac_up + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample + title: size-fraction upper threshold + examples: + - value: 20 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size-fraction upper threshold + rank: 11 + is_a: core field + slot_uri: MIXS:0000736 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + slope_aspect: + name: slope_aspect + description: The direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees). - This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration. + title: slope aspect + todos: + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + comments: + - Aspect is the orientation of slope, measured clockwise in degrees from 0 to 360, where 0 is north-facing, 90 is east-facing, 180 is south-facing, and 270 is west-facing. + examples: + - value: '35' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 1 + is_a: core field + slot_uri: MIXS:0000647 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + slope_gradient: + name: slope_gradient + description: Commonly called 'slope'. The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer + title: slope gradient + todos: + - Slope is a percent. How does the validation work? Check to correct examples + - Slope is a percent. How does the validation work? Check to correct examples + examples: + - value: 10% + - value: 10 % + - value: '0.1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 31 + is_a: core field + slot_uri: MIXS:0000646 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + soil_horizon: + name: soil_horizon + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath + title: soil horizon + examples: + - value: A horizon + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon + rank: 32 + is_a: core field + slot_uri: MIXS:0001082 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: soil_horizon_enum + soil_text_measure: + name: soil_text_measure + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: The relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional. + title: soil texture measurement + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil texture measurement + rank: 33 + is_a: core field + slot_uri: MIXS:0000335 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + soil_texture_meth: + name: soil_texture_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining soil texture + title: soil texture method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil texture method + rank: 34 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000336 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + soil_type: + name: soil_type + annotations: + expected_value: + tag: expected_value + value: ENVO_00001998 + occurrence: + tag: occurrence + value: '1' + description: Description of the soil type or classification. This field accepts terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998). Multiple terms can be separated by pipes. + title: soil type + examples: + - value: plinthosol [ENVO:00002250] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil type + rank: 35 + is_a: core field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000332 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + soil_type_meth: + name: soil_type_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining soil series name or other lower-level classification + title: soil type method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil type method + rank: 36 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000334 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: SpecificEcosystemEnum + recommended: true + start_date_inc: + name: start_date_inc + description: Date the incubation was started. Only relevant for incubation samples. + title: incubation start date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 4 + string_serialization: '{date, arbitrary precision}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + multivalued: false + start_time_inc: + name: start_time_inc + description: Time the incubation was started. Only relevant for incubation samples. + title: incubation start time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 5 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + store_cond: + name: store_cond + annotations: + expected_value: + tag: expected_value + value: storage condition type;duration + occurrence: + tag: occurrence + value: '1' + description: Explain how the soil sample is stored (fresh/frozen/other). + title: storage conditions + examples: + - value: -20 degree Celsius freezer;P2Y10D + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - storage conditions + rank: 2 + is_a: core field + string_serialization: '{text};{duration}' + slot_uri: MIXS:0000327 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: StoreCondEnum + required: true + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tillage: + name: tillage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: m + description: Note method(s) used for tilling + title: history/tillage + examples: + - value: chisel + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - history/tillage + rank: 38 + is_a: core field + slot_uri: MIXS:0001081 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: tillage_enum + tot_carb: + name: tot_carb + description: Total carbon content + title: total carbon + todos: + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + - is this inorganic and organic? both? could use some clarification. + - ug/L doesn't seem like the right units. Should check this slots usage in databases and re-evaluate. I couldn't find any references that provided this data in this format + examples: + - value: 1 ug/L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 47 + is_a: core field + slot_uri: MIXS:0000525 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro_cont_meth: + name: tot_nitro_cont_meth + description: Reference or method used in determining the total nitrogen + title: total nitrogen content method + examples: + - value: https://doi.org/10.2134/agronmonogr9.2.c32 + - value: https://acsess.onlinelibrary.wiley.com/doi/full/10.2136/sssaj2009.0389?casa_token=bm0pYIUdNMgAAAAA%3AOWVRR0STHaOe-afTcTdxn5m1hM8n2ltM0wY-b1iYpYdD9dhwppk5j3LvC2IO5yhOIvyLVeQz4NZRCZo + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 49 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000338 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + tot_nitro_content: + name: tot_nitro_content + description: Total nitrogen content of the sample + title: total nitrogen content + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 48 + is_a: core field + slot_uri: MIXS:0000530 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_org_c_meth: + name: tot_org_c_meth + description: Reference or method used in determining total organic carbon + title: total organic carbon method + examples: + - value: https://doi.org/10.1080/07352680902776556 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 51 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000337 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + tot_org_carb: + name: tot_org_carb + description: 'Definition for soil: total organic carbon content of the soil, definition otherwise: total organic carbon content' + title: total organic carbon + todos: + - check description. How are they different? + - check description. How are they different? + examples: + - value: 5 mg N/ L + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 50 + is_a: core field + slot_uri: MIXS:0000533 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_phosp: + name: tot_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: 'Total phosphorus concentration in the sample, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus' + title: total phosphorus + examples: + - value: 0.03 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total phosphorus + rank: 52 + is_a: core field + slot_uri: MIXS:0000117 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_cont_soil_meth: + name: water_cont_soil_meth + description: Reference or method used in determining the water content of soil + title: water content method + todos: + - Why is it soil water content method in the name but not the title? Is this slot used in other samples? + - Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few). + - Should this be multi valued? How to we manage and validate this? + - Why is it soil water content method in the name but not the title? Is this slot used in other samples? + - Soil water content can be measure MANY ways and often, multiple ways are used in one experiment (gravimetric water content and water holding capacity and water filled pore space, to name a few). + - Should this be multi valued? How to we manage and validate this? + comments: + - Required if providing water content + examples: + - value: J. Nat. Prod. Plant Resour., 2012, 2 (4):500-503 + - value: https://dec.alaska.gov/applications/spar/webcalc/definitions.htm + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 40 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000323 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + water_content: + name: water_content + annotations: + expected_value: + tag: expected_value + value: string + preferred_unit: + tag: preferred_unit + value: gram per gram or cubic centimeter per cubic centimeter + description: Water content measurement + title: water content + todos: + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + - value in preferred unit is too limiting. need to change this + - check and correct validation so examples are accepted + - This is no longer matching the listed IRI from GSC. When NMDC has its own slots, map this to the MIxS slot + - how to manage multiple water content methods? + examples: + - value: 75% + - value: 75 % + - value: 0.75 g water/g dry soil + - value: 75% water holding capacity + - value: 1.1 g fresh weight/ dry weight + - value: 10% water filled pore space + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 39 + is_a: core field + string_serialization: '{float or pct} {unit}' + slot_uri: MIXS:0000185 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?%? \S.+$ + watering_regm: + name: watering_regm + description: Information about treatment involving an exposure to watering frequencies, treatment regimen including how many times the treatment was repeated, how long each treatment lasted, and the start and end time of the entire treatment; can include multiple regimens + title: watering regimen + examples: + - value: 1 liter;R2/2018-05-11T14:30/2018-05-11T19:30/P1H30M + - value: 75% water holding capacity; constant + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + string_serialization: '{float} {unit};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000591 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + zinc: + name: zinc + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mg/kg (ppm) + occurrence: + tag: occurrence + value: '1' + description: Concentration of zinc in the sample + title: zinc + examples: + - value: 2.5 mg/kg + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://www.ornl.gov/content/bio-scales-0 + aliases: + - zinc + rank: 1004 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + multivalued: false + organism_count: + name: organism_count + range: string + pattern: ^(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other)\|)*(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other))$ + multivalued: false + WastewaterSludgeInterface: + name: WastewaterSludgeInterface + description: wastewater_sludge dh_interface + title: Wastewater Sludge + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - alkalinity + - biochem_oxygen_dem + - chem_administration + - chem_oxygen_dem + - collection_date + - depth + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - efficiency_percent + - elev + - emulsions + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - gaseous_substances + - geo_loc_name + - horizon_meth + - indust_eff_percent + - inorg_particles + - lat_lon + - misc_param + - nitrate + - org_particles + - organism_count + - oxy_stat_samp + - perturbation + - ph + - ph_meth + - phosphate + - pre_treatment + - primary_treatment + - reactor_type + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - secondary_treatment + - sewage_type + - size_frac + - sludge_retent_time + - sodium + - soluble_inorg_mat + - soluble_org_mat + - specific_ecosystem + - suspend_solids + - temp + - tertiary_treatment + - tot_nitro + - tot_phosphate + - wastewater_type + slot_usage: + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biochem_oxygen_dem: + name: biochem_oxygen_dem + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Amount of dissolved oxygen needed by aerobic biological organisms in a body of water to break down organic material present in a given water sample at certain temperature over a specific time period + title: biochemical oxygen demand + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biochemical oxygen demand + rank: 296 + is_a: core field + slot_uri: MIXS:0000653 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chem_oxygen_dem: + name: chem_oxygen_dem + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: A measure of the capacity of water to consume oxygen during the decomposition of organic matter and the oxidation of inorganic chemicals such as ammonia and nitrite + title: chemical oxygen demand + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical oxygen demand + rank: 301 + is_a: core field + slot_uri: MIXS:0000656 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + notes: + - 'range: string or EcosystemEnum? The enum could be dynamic or might be soil biased.' + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + notes: + - string or EcosystemCategoryEnum range? + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + notes: + - string or EcosystemSubtypeEnum range? + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + notes: + - string or EcosystemTypeEnum range? + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + efficiency_percent: + name: efficiency_percent + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Percentage of volatile solids removed from the anaerobic digestor + title: efficiency percent + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - efficiency percent + rank: 307 + is_a: core field + slot_uri: MIXS:0000657 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '225' + - value: '0' + - value: '1250' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + required: true + emulsions: + name: emulsions + annotations: + expected_value: + tag: expected_value + value: emulsion name;measurement value + preferred_unit: + tag: preferred_unit + value: gram per liter + occurrence: + tag: occurrence + value: m + description: Amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types + title: emulsions + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - emulsions + rank: 308 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000660 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + env_broad_scale: + name: env_broad_scale + description: 'In this field, report which major environmental system your sample or specimen came from. The systems identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. were you in the desert or a rainforest?). We recommend using subclasses of ENVO''s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. Format (one term): termLabel [termID], Format (multiple terms): termLabel [termID]|termLabel [termID]|termLabel [termID]. Example: Annotating a water sample from the photic zone in middle of the Atlantic Ocean, consider: oceanic epipelagic zone biome [ENVO:01000033]. Example: Annotating a sample from the Amazon rainforest consider: tropical moist broadleaf forest biome [ENVO:01000228]. If needed, request new terms on the ENVO tracker, identified here: http://www.obofoundry.org/ontology/envo.html' + title: broad-scale environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: canopy [ENVO:00000047] + - value: herb and fern layer [ENVO:01000337] + - value: litter layer [ENVO:01000338] + - value: understory [01000335] + - value: shrub layer [ENVO:01000336] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + notes: + - range changed to enumeration late in makefile, so this is modified (but "sample ID" anyway) + examples: + - value: soil [ENVO:00001998] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:EFO_0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + gaseous_substances: + name: gaseous_substances + annotations: + expected_value: + tag: expected_value + value: gaseous substance name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances + title: gaseous substances + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - gaseous substances + rank: 311 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000661 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{text}: {text}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: '^[^:, ][^:]*: [^:, ][^,]*, [^:, ].*$' + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + indust_eff_percent: + name: indust_eff_percent + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: percentage + occurrence: + tag: occurrence + value: '1' + description: Percentage of industrial effluents received by wastewater treatment plant + title: industrial effluent percent + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - industrial effluent percent + rank: 332 + is_a: core field + slot_uri: MIXS:0000662 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + inorg_particles: + name: inorg_particles + annotations: + expected_value: + tag: expected_value + value: inorganic particle name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter, milligram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles + title: inorganic particles + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - inorganic particles + rank: 333 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000664 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + - This is currently a required field but it's not clear if this should be required for human hosts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{lat lon}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?([1-8]?\d(\.\d+)?|90(\.0+)?)\s[-+]?(180(\.0+)?|((1[0-7]\d)|([1-9]?\d))(\.\d+)?)$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_particles: + name: org_particles + annotations: + expected_value: + tag: expected_value + value: particle name;measurement value + preferred_unit: + tag: preferred_unit + value: gram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc. + title: organic particles + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic particles + rank: 338 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000665 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([-+]?[0-9]*\.?[0-9]+ +\S.*\|)*([-+]?[0-9]*\.?[0-9]+ +\S.*)$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: pH measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + notes: + - Use modified term + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + string_serialization: '{float}' + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + recommended: true + minimum_value: 0 + maximum_value: 14 + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pre_treatment: + name: pre_treatment + annotations: + expected_value: + tag: expected_value + value: pre-treatment type + occurrence: + tag: occurrence + value: '1' + description: The process of pre-treatment removes materials that can be easily collected from the raw wastewater + title: pre-treatment + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pre-treatment + rank: 342 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000348 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + primary_treatment: + name: primary_treatment + annotations: + expected_value: + tag: expected_value + value: primary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed + title: primary treatment + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - primary treatment + rank: 343 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000349 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + reactor_type: + name: reactor_type + annotations: + expected_value: + tag: expected_value + value: reactor type name + occurrence: + tag: occurrence + value: '1' + description: Anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage + title: reactor type + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - reactor type + rank: 346 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000350 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + comments: + - Report dimensions and details when applicable + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + comments: + - This can be a citation or description + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + comments: + - This refers to the TOTAL amount of sample collected from the experiment. NOT the amount sent to each institution or collected for a specific analysis. + examples: + - value: 5 grams + - value: 10 mL + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + string_serialization: '{float} {unit}' + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which the sample was stored (degrees are assumed) + title: sample storage temperature + examples: + - value: -80 Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + secondary_treatment: + name: secondary_treatment + annotations: + expected_value: + tag: expected_value + value: secondary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process for substantially degrading the biological content of the sewage + title: secondary treatment + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - secondary treatment + rank: 360 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000351 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sewage_type: + name: sewage_type + annotations: + expected_value: + tag: expected_value + value: sewage type name + occurrence: + tag: occurrence + value: '1' + description: Type of wastewater treatment plant as municipial or industrial + title: sewage type + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sewage type + rank: 361 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000215 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + sludge_retent_time: + name: sludge_retent_time + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: hours + occurrence: + tag: occurrence + value: '1' + description: The time activated sludge remains in reactor + title: sludge retention time + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sludge retention time + rank: 362 + is_a: core field + slot_uri: MIXS:0000669 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + soluble_inorg_mat: + name: soluble_inorg_mat + annotations: + expected_value: + tag: expected_value + value: soluble inorganic material name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter, parts per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc. + title: soluble inorganic material + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soluble inorganic material + rank: 364 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000672 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + soluble_org_mat: + name: soluble_org_mat + annotations: + expected_value: + tag: expected_value + value: soluble organic material name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, mole per liter, gram per liter, parts per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc. + title: soluble organic material + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soluble organic material + rank: 365 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000673 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + notes: + - string or SpecificEcosystemEnum range? + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + suspend_solids: + name: suspend_solids + annotations: + expected_value: + tag: expected_value + value: suspended solid name;measurement value + preferred_unit: + tag: preferred_unit + value: gram, microgram, milligram per liter, mole per liter, gram per liter, part per million + occurrence: + tag: occurrence + value: m + description: Concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter; can include multiple substances + title: suspended solids + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - suspended solids + rank: 372 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000150 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tertiary_treatment: + name: tertiary_treatment + annotations: + expected_value: + tag: expected_value + value: tertiary treatment type + occurrence: + tag: occurrence + value: '1' + description: The process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment + title: tertiary treatment + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - tertiary treatment + rank: 374 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000352 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + tot_nitro: + name: tot_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen' + title: total nitrogen concentration + examples: + - value: 50 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total nitrogen concentration + rank: 377 + is_a: core field + slot_uri: MIXS:0000102 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_phosphate: + name: tot_phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Total amount or concentration of phosphate + title: total phosphate + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total phosphate + rank: 378 + is_a: core field + slot_uri: MIXS:0000689 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + wastewater_type: + name: wastewater_type + annotations: + expected_value: + tag: expected_value + value: wastewater type name + occurrence: + tag: occurrence + value: '1' + description: The origin of wastewater such as human waste, rainfall, storm drains, etc. + title: wastewater type + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - wastewater type + rank: 385 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000353 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + WaterInterface: + name: WaterInterface + description: water dh_interface + title: Water + from_schema: https://example.com/nmdc_submission_schema + is_a: DhInterface + mixins: + - DhMultiviewCommonColumnsMixin + - SampIdNewTermsMixin + slots: + - alkalinity + - alkalinity_method + - alkyl_diethers + - aminopept_act + - ammonium + - atmospheric_data + - bac_prod + - bac_resp + - bacteria_carb_prod + - biomass + - bishomohopanol + - bromide + - calcium + - carb_nitro_ratio + - chem_administration + - chloride + - chlorophyll + - collection_date + - conduc + - density + - depth + - diether_lipids + - diss_carb_dioxide + - diss_hydrogen + - diss_inorg_carb + - diss_inorg_nitro + - diss_inorg_phosp + - diss_org_carb + - diss_org_nitro + - diss_oxygen + - down_par + - ecosystem + - ecosystem_category + - ecosystem_subtype + - ecosystem_type + - elev + - env_broad_scale + - env_local_scale + - env_medium + - env_package + - experimental_factor + - fluor + - geo_loc_name + - glucosidase_act + - horizon_meth + - lat_lon + - light_intensity + - mean_frict_vel + - mean_peak_frict_vel + - misc_param + - n_alkanes + - nitrate + - nitrite + - nitro + - org_carb + - org_matter + - org_nitro + - organism_count + - oxy_stat_samp + - part_org_carb + - part_org_nitro + - perturbation + - petroleum_hydrocarb + - ph + - ph_meth + - phaeopigments + - phosphate + - phosplipid_fatt_acid + - photon_flux + - potassium + - pressure + - primary_prod + - redox_potential + - salinity + - samp_collec_device + - samp_collec_method + - samp_mat_process + - samp_size + - samp_store_dur + - samp_store_loc + - samp_store_temp + - sample_link + - silicate + - size_frac + - size_frac_low + - size_frac_up + - sodium + - soluble_react_phosp + - specific_ecosystem + - sulfate + - sulfide + - suspend_part_matter + - temp + - tidal_stage + - tot_depth_water_col + - tot_diss_nitro + - tot_inorg_nitro + - tot_nitro + - tot_part_carb + - turbidity + - water_current + slot_usage: + alkalinity: + name: alkalinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliequivalent per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate + title: alkalinity + examples: + - value: 50 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity + rank: 1 + is_a: core field + slot_uri: MIXS:0000421 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + alkalinity_method: + name: alkalinity_method + annotations: + expected_value: + tag: expected_value + value: description of method + occurrence: + tag: occurrence + value: '1' + description: Method used for alkalinity measurement + title: alkalinity method + examples: + - value: titration + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkalinity method + rank: 218 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000298 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + alkyl_diethers: + name: alkyl_diethers + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of alkyl diethers + title: alkyl diethers + examples: + - value: 0.005 mole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - alkyl diethers + rank: 2 + is_a: core field + slot_uri: MIXS:0000490 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + aminopept_act: + name: aminopept_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mole per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of aminopeptidase activity + title: aminopeptidase activity + examples: + - value: 0.269 mole per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - aminopeptidase activity + rank: 3 + is_a: core field + slot_uri: MIXS:0000172 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ammonium: + name: ammonium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of ammonium in the sample + title: ammonium + examples: + - value: 1.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - ammonium + rank: 4 + is_a: core field + slot_uri: MIXS:0000427 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + atmospheric_data: + name: atmospheric_data + annotations: + expected_value: + tag: expected_value + value: atmospheric data name;measurement value + occurrence: + tag: occurrence + value: m + description: Measurement of atmospheric data; can include multiple data + title: atmospheric data + examples: + - value: wind speed;9 knots + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - atmospheric data + rank: 219 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0001097 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + bac_prod: + name: bac_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day + occurrence: + tag: occurrence + value: '1' + description: Bacterial production in the water column measured by isotope uptake + title: bacterial production + examples: + - value: 5 milligram per cubic meter per day + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bacterial production + rank: 220 + is_a: core field + slot_uri: MIXS:0000683 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bac_resp: + name: bac_resp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day, micromole oxygen per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial respiration in the water column + title: bacterial respiration + examples: + - value: 300 micromole oxygen per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bacterial respiration + rank: 221 + is_a: core field + slot_uri: MIXS:0000684 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bacteria_carb_prod: + name: bacteria_carb_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of bacterial carbon production + title: bacterial carbon production + examples: + - value: 2.53 microgram per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bacterial carbon production + rank: 5 + is_a: core field + slot_uri: MIXS:0000173 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + biomass: + name: biomass + annotations: + expected_value: + tag: expected_value + value: biomass type;measurement value + preferred_unit: + tag: preferred_unit + value: ton, kilogram, gram + occurrence: + tag: occurrence + value: m + description: Amount of biomass; should include the name for the part of biomass measured, e.g. Microbial, total. Can include multiple measurements + title: biomass + examples: + - value: total;20 gram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - biomass + rank: 6 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000174 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + bishomohopanol: + name: bishomohopanol + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, microgram per gram + occurrence: + tag: occurrence + value: '1' + description: Concentration of bishomohopanol + title: bishomohopanol + examples: + - value: 14 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bishomohopanol + rank: 7 + is_a: core field + slot_uri: MIXS:0000175 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + bromide: + name: bromide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of bromide + title: bromide + examples: + - value: 0.05 parts per million + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - bromide + rank: 8 + is_a: core field + slot_uri: MIXS:0000176 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + calcium: + name: calcium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, micromole per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of calcium in the sample + title: calcium + examples: + - value: 0.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - calcium + rank: 9 + is_a: core field + slot_uri: MIXS:0000432 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + carb_nitro_ratio: + name: carb_nitro_ratio + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ratio of amount or concentrations of carbon to nitrogen + title: carbon/nitrogen ratio + examples: + - value: '0.417361111' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - carbon/nitrogen ratio + rank: 44 + is_a: core field + slot_uri: MIXS:0000310 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: float + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chem_administration: + name: chem_administration + annotations: + expected_value: + tag: expected_value + value: CHEBI;timestamp + occurrence: + tag: occurrence + value: m + description: List of chemical compounds administered to the host or site where sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can include multiple compounds. For chemical entities of biological interest ontology (chebi) (v 163), http://purl.bioontology.org/ontology/chebi + title: chemical administration + examples: + - value: agar [CHEBI:2509];2018-05-11|agar [CHEBI:2509];2018-05-22 + - value: agar [CHEBI:2509];2018-05 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chemical administration + rank: 17 + is_a: core field + string_serialization: '{termLabel} {[termID]};{timestamp}' + slot_uri: MIXS:0000751 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\];([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + chloride: + name: chloride + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of chloride in the sample + title: chloride + examples: + - value: 5000 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chloride + rank: 10 + is_a: core field + slot_uri: MIXS:0000429 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + chlorophyll: + name: chlorophyll + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter, microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of chlorophyll + title: chlorophyll + examples: + - value: 5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - chlorophyll + rank: 11 + is_a: core field + slot_uri: MIXS:0000177 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + collection_date: + name: collection_date + annotations: + expected_value: + tag: expected_value + value: date and time + description: The date of sampling + title: collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arb prec date only + - Use modified term (amended definition) + examples: + - value: '2021-04-15' + - value: 2021-04 + - value: '2021' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - collection date + rank: 3 + is_a: environment field + string_serialization: '{date, arbitrary precision}' + slot_uri: MIXS:0000011 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + conduc: + name: conduc + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milliSiemens per centimeter + occurrence: + tag: occurrence + value: '1' + description: Electrical conductivity of water + title: conductivity + examples: + - value: 10 milliSiemens per centimeter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - conductivity + rank: 222 + is_a: core field + slot_uri: MIXS:0000692 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + density: + name: density + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: gram per cubic meter, gram per cubic centimeter + occurrence: + tag: occurrence + value: '1' + description: Density of the sample, which is its mass per unit volume (aka volumetric mass density) + title: density + examples: + - value: 1000 kilogram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - density + rank: 12 + is_a: core field + slot_uri: MIXS:0000435 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + depth: + name: depth + annotations: + expected_value: + tag: expected_value + value: measurement value + description: The vertical distance below local surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. + title: depth, meters + notes: + - Use modified term + comments: + - All depths must be reported in meters. Provide the numerical portion only. + examples: + - value: 0 - 0.1 + - value: '1' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - depth + rank: 9 + is_a: environment field + string_serialization: '{float}|{float}-{float}' + slot_uri: MIXS:0000018 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?(\s*-\s*[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)?$ + diether_lipids: + name: diether_lipids + annotations: + expected_value: + tag: expected_value + value: diether lipid name;measurement value + preferred_unit: + tag: preferred_unit + value: nanogram per liter + occurrence: + tag: occurrence + value: m + description: Concentration of diether lipids; can include multiple types of diether lipids + title: diether lipids + examples: + - value: 0.2 nanogram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - diether lipids + rank: 13 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000178 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + diss_carb_dioxide: + name: diss_carb_dioxide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved carbon dioxide in the sample or liquid portion of the sample + title: dissolved carbon dioxide + examples: + - value: 5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved carbon dioxide + rank: 14 + is_a: core field + slot_uri: MIXS:0000436 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_hydrogen: + name: diss_hydrogen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved hydrogen + title: dissolved hydrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved hydrogen + rank: 15 + is_a: core field + slot_uri: MIXS:0000179 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_carb: + name: diss_inorg_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Dissolved inorganic carbon concentration in the sample, typically measured after filtering the sample using a 0.45 micrometer filter + title: dissolved inorganic carbon + examples: + - value: 2059 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic carbon + rank: 16 + is_a: core field + slot_uri: MIXS:0000434 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_nitro: + name: diss_inorg_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic nitrogen + title: dissolved inorganic nitrogen + examples: + - value: 761 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic nitrogen + rank: 223 + is_a: core field + slot_uri: MIXS:0000698 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_inorg_phosp: + name: diss_inorg_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved inorganic phosphorus in the sample + title: dissolved inorganic phosphorus + examples: + - value: 56.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved inorganic phosphorus + rank: 224 + is_a: core field + slot_uri: MIXS:0000106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_carb: + name: diss_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved organic carbon in the sample, liquid portion of the sample, or aqueous phase of the fluid + title: dissolved organic carbon + examples: + - value: 197 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic carbon + rank: 17 + is_a: core field + slot_uri: MIXS:0000433 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_org_nitro: + name: diss_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 + title: dissolved organic nitrogen + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved organic nitrogen + rank: 18 + is_a: core field + slot_uri: MIXS:0000162 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + diss_oxygen: + name: diss_oxygen + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per kilogram, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of dissolved oxygen + title: dissolved oxygen + examples: + - value: 175 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - dissolved oxygen + rank: 19 + is_a: core field + slot_uri: MIXS:0000119 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + down_par: + name: down_par + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microEinstein per square meter per second, microEinstein per square centimeter per second + occurrence: + tag: occurrence + value: '1' + description: Visible waveband radiance and irradiance measurements in the water column + title: downward PAR + examples: + - value: 28.71 microEinstein per square meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - downward PAR + rank: 225 + is_a: core field + slot_uri: MIXS:0000703 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ecosystem: + name: ecosystem + description: An ecosystem is a combination of a physical environment (abiotic factors) and all the organisms (biotic factors) that interact with this environment. Ecosystem is in position 1/5 in a GOLD path. + comments: + - The abiotic factors play a profound role on the type and composition of organisms in a given environment. The GOLD Ecosystem at the top of the five-level classification system is aimed at capturing the broader environment from which an organism or environmental sample is collected. The three broad groups under Ecosystem are Environmental, Host-associated, and Engineered. They represent samples collected from a natural environment or from another organism or from engineered environments like bioreactors respectively. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 9 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_category: + name: ecosystem_category + description: Ecosystem categories represent divisions within the ecosystem based on specific characteristics of the environment from where an organism or sample is isolated. Ecosystem category is in position 2/5 in a GOLD path. + comments: + - The Environmental ecosystem (for example) is divided into Air, Aquatic and Terrestrial. Ecosystem categories for Host-associated samples can be individual hosts or phyla and for engineered samples it may be manipulated environments like bioreactors, solid waste etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 10 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_subtype: + name: ecosystem_subtype + description: Ecosystem subtypes represent further subdivision of Ecosystem types into more distinct subtypes. Ecosystem subtype is in position 4/5 in a GOLD path. + comments: + - Ecosystem Type Marine (Environmental -> Aquatic -> Marine) is further divided (for example) into Intertidal zone, Coastal, Pelagic, Intertidal zone etc. in the Ecosystem subtype category. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 12 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + ecosystem_type: + name: ecosystem_type + description: Ecosystem types represent things having common characteristics within the Ecosystem Category. These common characteristics based grouping is still broad but specific to the characteristics of a given environment. Ecosystem type is in position 3/5 in a GOLD path. + comments: + - The Aquatic ecosystem category (for example) may have ecosystem types like Marine or Thermal springs etc. Ecosystem category Air may have Indoor air or Outdoor air as different Ecosystem Types. In the case of Host-associated samples, ecosystem type can represent Respiratory system, Digestive system, Roots etc. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 11 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + elev: + name: elev + description: Elevation of the sampling site is its height above a fixed reference point, most commonly the mean sea level. Elevation is mainly used when referring to points on the earth's surface, while altitude is used for points above the surface, such as an aircraft in flight or a spacecraft in orbit. + title: elevation, meters + comments: + - All elevations must be reported in meters. Provide the numerical portion only. + examples: + - value: '100' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + slot_uri: MIXS:0000093 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: float + env_broad_scale: + name: env_broad_scale + description: 'Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS' + title: broad-scale environmental context + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 6 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000012 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_local_scale: + name: env_local_scale + description: 'Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.' + title: local environmental context + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 7 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000013 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_medium: + name: env_medium + description: 'Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).' + title: environmental medium + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 8 + is_a: environment field + string_serialization: '{termLabel} {[termID]}' + slot_uri: MIXS:0000014 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$ + env_package: + name: env_package + description: Select the MIxS enviromental package that best describes the environment from which your sample was collected. + title: environmental package + examples: + - value: soil + in_subset: + - mixs extension + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - environmental package + rank: 4 + is_a: attribute + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + multivalued: false + experimental_factor: + name: experimental_factor + annotations: + expected_value: + tag: expected_value + value: text or EFO and/or OBI + description: Experimental factors are essentially the variable aspects of an experiment design which can be used to describe an experiment, or set of experiments, in an increasingly detailed manner. This field accepts ontology terms from Experimental Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO; for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI + title: experimental factor + examples: + - value: time series design [EFO:0001779] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - experimental factor + rank: 12 + is_a: investigation field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000008 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + fluor: + name: fluor + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram chlorophyll a per cubic meter, volts + occurrence: + tag: occurrence + value: '1' + description: Raw or converted fluorescence of water + title: fluorescence + examples: + - value: 2.5 volts + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - fluorescence + rank: 226 + is_a: core field + slot_uri: MIXS:0000704 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + geo_loc_name: + name: geo_loc_name + annotations: + expected_value: + tag: expected_value + value: 'country or sea name (INSDC or GAZ): region(GAZ), specific location name' + description: The geographical origin of the sample as defined by the country or sea name followed by specific region name. + title: geographic location (country and/or sea,region) + examples: + - value: 'USA: Maryland, Bethesda' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - geographic location (country and/or sea,region) + rank: 4 + is_a: environment field + string_serialization: '{term}: {term}, {text}' + slot_uri: MIXS:0000010 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + required: true + glucosidase_act: + name: glucosidase_act + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: mol per liter per hour + occurrence: + tag: occurrence + value: '1' + description: Measurement of glucosidase activity + title: glucosidase activity + examples: + - value: 5 mol per liter per hour + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - glucosidase activity + rank: 20 + is_a: core field + slot_uri: MIXS:0000137 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + horizon_meth: + name: horizon_meth + annotations: + expected_value: + tag: expected_value + value: PMID,DOI or url + occurrence: + tag: occurrence + value: '1' + description: Reference or method used in determining the horizon + title: soil horizon method + examples: + - value: '' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soil horizon method + rank: 19 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0000321 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + lat_lon: + name: lat_lon + description: This is currently a required field but it's not clear if this should be required for human hosts + title: geographic location (latitude and longitude) + notes: + - required where? + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + is_a: environment field + string_serialization: '{float} {float}' + slot_uri: MIXS:0000009 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?$ + light_intensity: + name: light_intensity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: lux + occurrence: + tag: occurrence + value: '1' + description: Measurement of light intensity + title: light intensity + examples: + - value: 0.3 lux + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - light intensity + rank: 227 + is_a: core field + slot_uri: MIXS:0000706 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_frict_vel: + name: mean_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean friction velocity + title: mean friction velocity + examples: + - value: 0.5 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean friction velocity + rank: 22 + is_a: core field + slot_uri: MIXS:0000498 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + mean_peak_frict_vel: + name: mean_peak_frict_vel + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter per second + occurrence: + tag: occurrence + value: '1' + description: Measurement of mean peak friction velocity + title: mean peak friction velocity + examples: + - value: 1 meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - mean peak friction velocity + rank: 23 + is_a: core field + slot_uri: MIXS:0000502 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + misc_param: + name: misc_param + annotations: + expected_value: + tag: expected_value + value: parameter name;measurement value + occurrence: + tag: occurrence + value: m + description: Any other measurement performed or parameter collected, that is not listed here + title: miscellaneous parameter + examples: + - value: Bicarbonate ion concentration;2075 micromole per kilogram + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - miscellaneous parameter + rank: 23 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000752 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + n_alkanes: + name: n_alkanes + annotations: + expected_value: + tag: expected_value + value: n-alkane name;measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of n-alkanes; can include multiple n-alkanes + title: n-alkanes + examples: + - value: n-hexadecane;100 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - n-alkanes + rank: 25 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000503 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + nitrate: + name: nitrate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrate in the sample + title: nitrate + examples: + - value: 65 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrate + rank: 26 + is_a: core field + slot_uri: MIXS:0000425 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitrite: + name: nitrite + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrite in the sample + title: nitrite + examples: + - value: 0.5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrite + rank: 27 + is_a: core field + slot_uri: MIXS:0000426 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + nitro: + name: nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of nitrogen (total) + title: nitrogen + examples: + - value: 4.2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - nitrogen + rank: 28 + is_a: core field + slot_uri: MIXS:0000504 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_carb: + name: org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic carbon + title: organic carbon + examples: + - value: 1.5 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic carbon + rank: 29 + is_a: core field + slot_uri: MIXS:0000508 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_matter: + name: org_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic matter + title: organic matter + examples: + - value: 1.75 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic matter + rank: 45 + is_a: core field + slot_uri: MIXS:0000204 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + org_nitro: + name: org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of organic nitrogen + title: organic nitrogen + examples: + - value: 4 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organic nitrogen + rank: 46 + is_a: core field + slot_uri: MIXS:0000205 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + organism_count: + name: organism_count + annotations: + expected_value: + tag: expected_value + value: organism name;measurement value;enumeration + preferred_unit: + tag: preferred_unit + value: number of cells per cubic meter, number of cells per milliliter, number of cells per cubic centimeter + occurrence: + tag: occurrence + value: m + description: 'Total cell count of any organism (or group of organisms) per gram, volume or area of sample, should include name of organism followed by count. The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)' + title: organism count + examples: + - value: total prokaryotes;3.5e7 cells per milliliter;qPCR + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - organism count + rank: 30 + is_a: core field + slot_uri: MIXS:0000103 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other)\|)*(\S+.*\S+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+.*\S+;(qPCR|ATP|MPN|other))$ + oxy_stat_samp: + name: oxy_stat_samp + description: Oxygenation status of sample + title: oxygenation status of sample + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 25 + is_a: core field + slot_uri: MIXS:0000753 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: OxyStatSampEnum + part_org_carb: + name: part_org_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic carbon + title: particulate organic carbon + examples: + - value: 1.92 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - particulate organic carbon + rank: 31 + is_a: core field + slot_uri: MIXS:0000515 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + part_org_nitro: + name: part_org_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of particulate organic nitrogen + title: particulate organic nitrogen + examples: + - value: 0.3 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - particulate organic nitrogen + rank: 228 + is_a: core field + slot_uri: MIXS:0000719 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + perturbation: + name: perturbation + annotations: + expected_value: + tag: expected_value + value: perturbation type name;perturbation interval and duration + occurrence: + tag: occurrence + value: m + description: Type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with perturbation regimen including how many times the perturbation was repeated, how long each perturbation lasted, and the start and end time of the entire perturbation period; can include multiple perturbation types + title: perturbation + examples: + - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - perturbation + rank: 33 + is_a: core field + string_serialization: '{text};{Rn/start_time/end_time/duration}' + slot_uri: MIXS:0000754 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + petroleum_hydrocarb: + name: petroleum_hydrocarb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of petroleum hydrocarbon + title: petroleum hydrocarbon + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - petroleum hydrocarbon + rank: 34 + is_a: core field + slot_uri: MIXS:0000516 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + ph: + name: ph + annotations: + expected_value: + tag: expected_value + value: measurement value + occurrence: + tag: occurrence + value: '1' + description: Ph measurement of the sample, or liquid portion of sample, or aqueous phase of the fluid + title: pH + examples: + - value: '7.2' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pH + rank: 27 + is_a: core field + slot_uri: MIXS:0001001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: double + ph_meth: + name: ph_meth + description: Reference or method used in determining ph + title: pH method + comments: + - This can include a link to the instrument used or a citation for the method. + examples: + - value: https://www.southernlabware.com/pc9500-benchtop-ph-conductivity-meter-kit-ph-accuracy-2000mv-ph-range-2-000-to-20-000.html?gclid=Cj0KCQiAwJWdBhCYARIsAJc4idCO5vtvbVMf545fcvdROFqa6zjzNSoywNx6K4k9Coo9cCc2pybtvGsaAiR0EALw_wcB + - value: https://doi.org/10.2136/sssabookser5.3.c16 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 41 + is_a: core field + string_serialization: '{PMID}|{DOI}|{URL}' + slot_uri: MIXS:0001106 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + phaeopigments: + name: phaeopigments + annotations: + expected_value: + tag: expected_value + value: phaeopigment name;measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter + occurrence: + tag: occurrence + value: m + description: Concentration of phaeopigments; can include multiple phaeopigments + title: phaeopigments + examples: + - value: 2.5 milligram per cubic meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phaeopigments + rank: 35 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000180 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + phosphate: + name: phosphate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of phosphate + title: phosphate + examples: + - value: 0.7 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phosphate + rank: 53 + is_a: core field + slot_uri: MIXS:0000505 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + phosplipid_fatt_acid: + name: phosplipid_fatt_acid + annotations: + expected_value: + tag: expected_value + value: phospholipid fatty acid name;measurement value + preferred_unit: + tag: preferred_unit + value: mole per gram, mole per liter + occurrence: + tag: occurrence + value: m + description: Concentration of phospholipid fatty acids; can include multiple values + title: phospholipid fatty acid + examples: + - value: 2.98 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - phospholipid fatty acid + rank: 36 + is_a: core field + string_serialization: '{text};{float} {unit}' + slot_uri: MIXS:0000181 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+\|)*([^;\t\r\x0A]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A]+)$ + photon_flux: + name: photon_flux + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: number of photons per second per unit area + occurrence: + tag: occurrence + value: '1' + description: Measurement of photon flux + title: photon flux + examples: + - value: 3.926 micromole photons per second per square meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - photon flux + rank: 229 + is_a: core field + slot_uri: MIXS:0000725 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + potassium: + name: potassium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of potassium in the sample + title: potassium + examples: + - value: 463 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - potassium + rank: 38 + is_a: core field + slot_uri: MIXS:0000430 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + pressure: + name: pressure + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: atmosphere + occurrence: + tag: occurrence + value: '1' + description: Pressure to which the sample is subject to, in atmospheres + title: pressure + examples: + - value: 50 atmosphere + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - pressure + rank: 39 + is_a: core field + slot_uri: MIXS:0000412 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + primary_prod: + name: primary_prod + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per cubic meter per day, gram per square meter per day + occurrence: + tag: occurrence + value: '1' + description: Measurement of primary production, generally measured as isotope uptake + title: primary production + examples: + - value: 100 milligram per cubic meter per day + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - primary production + rank: 230 + is_a: core field + slot_uri: MIXS:0000728 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + redox_potential: + name: redox_potential + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millivolt + occurrence: + tag: occurrence + value: '1' + description: Redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential + title: redox potential + examples: + - value: 300 millivolt + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - redox potential + rank: 40 + is_a: core field + slot_uri: MIXS:0000182 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + salinity: + name: salinity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: practical salinity unit, percentage + occurrence: + tag: occurrence + value: '1' + description: The total concentration of all dissolved salts in a liquid or solid sample. While salinity can be measured by a complete chemical analysis, this method is difficult and time consuming. More often, it is instead derived from the conductivity measurement. This is known as practical salinity. These derivations compare the specific conductance of the sample to a salinity standard such as seawater. + title: salinity + examples: + - value: 25 practical salinity unit + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - salinity + rank: 54 + is_a: core field + slot_uri: MIXS:0000183 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_collec_device: + name: samp_collec_device + annotations: + expected_value: + tag: expected_value + value: device name + description: The device used to collect an environmental sample. This field accepts terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO). This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094). + title: sample collection device + examples: + - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713] + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection device + rank: 14 + is_a: nucleic acid sequence source field + string_serialization: '{termLabel} {[termID]}|{text}' + slot_uri: MIXS:0000002 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_collec_method: + name: samp_collec_method + annotations: + expected_value: + tag: expected_value + value: PMID,DOI,url , or text + description: The method employed for collecting the sample. + title: sample collection method + examples: + - value: swabbing + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample collection method + rank: 15 + is_a: nucleic acid sequence source field + string_serialization: '{PMID}|{DOI}|{URL}|{text}' + slot_uri: MIXS:0001225 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_mat_process: + name: samp_mat_process + annotations: + expected_value: + tag: expected_value + value: text + description: A brief description of any processing applied to the sample during or after retrieving the sample from environment, or a link to the relevant protocol(s) performed. + title: sample material processing + examples: + - value: filtering of seawater + - value: storing samples in ethanol + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample material processing + rank: 12 + is_a: nucleic acid sequence source field + string_serialization: '{text}' + slot_uri: MIXS:0000016 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + samp_size: + name: samp_size + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: millliter, gram, milligram, liter + description: The total amount or size (volume (ml), mass (g) or area (m2) ) of sample collected. + title: amount or size of sample collected + examples: + - value: 5 liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - amount or size of sample collected + rank: 18 + is_a: nucleic acid sequence source field + slot_uri: MIXS:0000001 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + samp_store_dur: + name: samp_store_dur + annotations: + expected_value: + tag: expected_value + value: duration + occurrence: + tag: occurrence + value: '1' + description: Duration for which the sample was stored + title: sample storage duration + examples: + - value: P1Y6M + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage duration + rank: 353 + is_a: core field + string_serialization: '{duration}' + slot_uri: MIXS:0000116 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_loc: + name: samp_store_loc + annotations: + expected_value: + tag: expected_value + value: location name + occurrence: + tag: occurrence + value: '1' + description: Location at which sample was stored, usually name of a specific freezer/room + title: sample storage location + examples: + - value: Freezer no:5 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage location + rank: 41 + is_a: core field + string_serialization: '{text}' + slot_uri: MIXS:0000755 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + samp_store_temp: + name: samp_store_temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + occurrence: + tag: occurrence + value: '1' + description: Temperature at which sample was stored, e.g. -80 degree Celsius + title: sample storage temperature + examples: + - value: -80 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample storage temperature + rank: 7 + is_a: core field + slot_uri: MIXS:0000110 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sample_link: + name: sample_link + description: A unique identifier to assign parent-child, subsample, or sibling samples. This is relevant when a sample or other material was used to generate the new sample. + title: sample linkage + notes: + - 'also tempted to include SampIdNewTermsMixin but if len(slot_usage.keys()) > 1 and "placeholder" in slot_usage.keys():AttributeError: ''list'' object has no attribute ''keys''' + comments: + - 'This field allows multiple entries separated by ; (Examples: Soil collected from the field will link with the soil used in an incubation. The soil a plant was grown in links to the plant sample. An original culture sample was transferred to a new vial and generated a new sample)' + examples: + - value: IGSN:DSJ0284 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 5 + string_serialization: '{text}:{text}' + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + recommended: true + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + silicate: + name: silicate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of silicate + title: silicate + examples: + - value: 0.05 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - silicate + rank: 43 + is_a: core field + slot_uri: MIXS:0000184 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac: + name: size_frac + annotations: + expected_value: + tag: expected_value + value: filter size value range + description: Filtering pore size used in sample preparation + title: size fraction selected + examples: + - value: 0-0.22 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size fraction selected + rank: 285 + is_a: nucleic acid sequence source field + string_serialization: '{float}-{float} {unit}' + slot_uri: MIXS:0000017 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + size_frac_low: + name: size_frac_low + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample. Materials larger than the size threshold are excluded from the sample + title: size-fraction lower threshold + examples: + - value: 0.2 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size-fraction lower threshold + rank: 10 + is_a: core field + slot_uri: MIXS:0000735 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + size_frac_up: + name: size_frac_up + annotations: + expected_value: + tag: expected_value + value: value + preferred_unit: + tag: preferred_unit + value: micrometer + occurrence: + tag: occurrence + value: '1' + description: Refers to the mesh/pore size used to retain the sample. Materials smaller than the size threshold are excluded from the sample + title: size-fraction upper threshold + examples: + - value: 20 micrometer + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - size-fraction upper threshold + rank: 11 + is_a: core field + slot_uri: MIXS:0000736 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_modified_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sodium: + name: sodium + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Sodium concentration in the sample + title: sodium + examples: + - value: 10.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sodium + rank: 363 + is_a: core field + slot_uri: MIXS:0000428 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + soluble_react_phosp: + name: soluble_react_phosp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of soluble reactive phosphorus + title: soluble reactive phosphorus + examples: + - value: 0.1 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - soluble reactive phosphorus + rank: 231 + is_a: core field + slot_uri: MIXS:0000738 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + specific_ecosystem: + name: specific_ecosystem + description: Specific ecosystems represent specific features of the environment like aphotic zone in an ocean or gastric mucosa within a host digestive system. Specific ecosystem is in position 5/5 in a GOLD path. + comments: + - Specific ecosystems help to define samples based on very specific characteristics of an environment under the five-level classification system. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - https://gold.jgi.doe.gov/help + rank: 13 + is_a: gold_path_field + owner: Biosample + domain_of: + - Biosample + - Study + slot_group: sample_id_section + range: string + recommended: true + multivalued: false + sulfate: + name: sulfate + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfate in the sample + title: sulfate + examples: + - value: 5 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfate + rank: 44 + is_a: core field + slot_uri: MIXS:0000423 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + sulfide: + name: sulfide + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: micromole per liter, milligram per liter, parts per million + occurrence: + tag: occurrence + value: '1' + description: Concentration of sulfide in the sample + title: sulfide + examples: + - value: 2 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sulfide + rank: 371 + is_a: core field + slot_uri: MIXS:0000424 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + suspend_part_matter: + name: suspend_part_matter + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: milligram per liter + occurrence: + tag: occurrence + value: '1' + description: Concentration of suspended particulate matter + title: suspended particulate matter + examples: + - value: 0.5 milligram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - suspended particulate matter + rank: 232 + is_a: core field + slot_uri: MIXS:0000741 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + temp: + name: temp + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: degree Celsius + description: Temperature of the sample at the time of sampling. + title: temperature + examples: + - value: 25 degree Celsius + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - temperature + rank: 37 + is_a: environment field + slot_uri: MIXS:0000113 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tidal_stage: + name: tidal_stage + annotations: + expected_value: + tag: expected_value + value: enumeration + occurrence: + tag: occurrence + value: '1' + description: Stage of tide + title: tidal stage + examples: + - value: high tide + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - tidal stage + rank: 45 + is_a: core field + slot_uri: MIXS:0000750 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: tidal_stage_enum + tot_depth_water_col: + name: tot_depth_water_col + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: meter + occurrence: + tag: occurrence + value: '1' + description: Measurement of total depth of water column + title: total depth of water column + examples: + - value: 500 meter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total depth of water column + rank: 46 + is_a: core field + slot_uri: MIXS:0000634 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_diss_nitro: + name: tot_diss_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen' + title: total dissolved nitrogen + examples: + - value: 40 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total dissolved nitrogen + rank: 233 + is_a: core field + slot_uri: MIXS:0000744 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_inorg_nitro: + name: tot_inorg_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter + occurrence: + tag: occurrence + value: '1' + description: Total inorganic nitrogen content + title: total inorganic nitrogen + examples: + - value: 40 microgram per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total inorganic nitrogen + rank: 234 + is_a: core field + slot_uri: MIXS:0000745 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_nitro: + name: tot_nitro + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter, milligram per liter + occurrence: + tag: occurrence + value: '1' + description: 'Total nitrogen concentration of water samples, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen' + title: total nitrogen concentration + examples: + - value: 50 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total nitrogen concentration + rank: 377 + is_a: core field + slot_uri: MIXS:0000102 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + tot_part_carb: + name: tot_part_carb + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: microgram per liter, micromole per liter + occurrence: + tag: occurrence + value: '1' + description: Total particulate carbon content + title: total particulate carbon + examples: + - value: 35 micromole per liter + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - total particulate carbon + rank: 235 + is_a: core field + slot_uri: MIXS:0000747 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + turbidity: + name: turbidity + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: formazin turbidity unit, formazin nephelometric units + occurrence: + tag: occurrence + value: '1' + description: Measure of the amount of cloudiness or haziness in water caused by individual particles + title: turbidity + examples: + - value: 0.3 nephelometric turbidity units + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - turbidity + rank: 47 + is_a: core field + slot_uri: MIXS:0000191 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + water_current: + name: water_current + annotations: + expected_value: + tag: expected_value + value: measurement value + preferred_unit: + tag: preferred_unit + value: cubic meter per second, knots + occurrence: + tag: occurrence + value: '1' + description: Measurement of magnitude and direction of flow within a fluid + title: water current + examples: + - value: 10 cubic meter per second + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - water current + rank: 236 + is_a: core field + slot_uri: MIXS:0000203 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_core_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+ +\S.*$ + DhMultiviewCommonColumnsMixin: + name: DhMultiviewCommonColumnsMixin + description: Mixin with DhMutliviewCommon Columns + title: Dh Mutliview Common Columns + from_schema: https://example.com/nmdc_submission_schema + mixin: true + slots: + - analysis_type + - samp_name + - source_mat_id + slot_usage: + analysis_type: + name: analysis_type + description: Select all the data types associated or available for this biosample + title: analysis/data type + examples: + - value: metagenomics; metabolomics; proteomics + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:investigation_type + rank: 3 + multivalued: true + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: analysis_type_enum + required: true + recommended: true + samp_name: + name: samp_name + annotations: + expected_value: + tag: expected_value + value: text + description: A local identifier or name that for the material sample collected. Refers to the original material collected or to any derived sub-samples. + title: sample name + comments: + - It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible. + examples: + - value: Rock core CB1178(5-6) from NSW + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + aliases: + - sample name + rank: 1 + is_a: investigation field + string_serialization: '{text}' + slot_uri: MIXS:0001107 + multivalued: false + identifier: true + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + required: true + source_mat_id: + name: source_mat_id + description: A globally unique identifier assigned to the biological sample. + title: source material identifier + todos: + - Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID. + - Currently, the comments say to use UUIDs. However, if we implement assigning NMDC identifiers with the minter we dont need to require a GUID. It can be an optional field to fill out only if they already have a resolvable ID. + notes: + - The source material IS the Globally Unique ID + comments: + - Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/). + - Identifiers must be prefixed. Possible FAIR prefixes are IGSNs (http://www.geosamples.org/getigsn), NCBI biosample accession numbers, ARK identifiers (https://arks.org/). These IDs enable linking to derived analytes and subsamples. If you have not assigned FAIR identifiers to your samples, you can generate UUIDs (https://www.uuidgenerator.net/). + examples: + - value: IGSN:AU1243 + - value: UUID:24f1467a-40f4-11ed-b878-0242ac120002 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + rank: 2 + is_a: nucleic acid sequence source field + string_serialization: '{text}:{text}' + slot_uri: MIXS:0000026 + multivalued: false + owner: Biosample + domain_of: + - Biosample + slot_group: sample_id_section + range: string + pattern: '[^\:\n\r]+\:[^\:\n\r]+' + oxy_stat_samp: + name: oxy_stat_samp + range: OxyStatSampEnum + SampIdNewTermsMixin: + name: SampIdNewTermsMixin + description: Mixin with SampIdNew Terms + title: SampId New Terms + from_schema: https://example.com/nmdc_submission_schema + mixin: true + slots: + - sample_link + slot_usage: [] + SoilMixsInspiredMixin: + name: SoilMixsInspiredMixin + description: Mixin with SoilMixsInspired Terms + title: Soil MIxS Inspired Mixin + from_schema: https://example.com/nmdc_submission_schema + mixin: true + slots: + - collection_date_inc + - collection_time + - collection_time_inc + - experimental_factor_other + - filter_method + - isotope_exposure + - micro_biomass_c_meth + - micro_biomass_n_meth + - microbial_biomass_c + - microbial_biomass_n + - non_microb_biomass + - non_microb_biomass_method + - org_nitro_method + - other_treatment + - start_date_inc + - start_time_inc + - collection_date_inc + - collection_time + - collection_time_inc + - experimental_factor_other + - filter_method + - isotope_exposure + - micro_biomass_c_meth + - micro_biomass_n_meth + - microbial_biomass_c + - microbial_biomass_n + - non_microb_biomass + - non_microb_biomass_method + - org_nitro_method + - other_treatment + - start_date_inc + - start_time_inc + slot_usage: + collection_date_inc: + name: collection_date_inc + description: Date the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 2 + string_serialization: '{date, arbitrary precision}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + multivalued: false + collection_time: + name: collection_time + description: The time of sampling, either as an instance (single point) or interval. + title: collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 1 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + collection_time_inc: + name: collection_time_inc + description: Time the incubation was harvested/collected/ended. Only relevant for incubation samples. + title: incubation collection time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 3 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + experimental_factor_other: + name: experimental_factor_other + description: Other details about your sample that you feel can't be accurately represented in the available columns. + title: experimental factor- other + comments: + - This slot accepts open-ended text about your sample. + - We recommend using key:value pairs. + - Provided pairs will be considered for inclusion as future slots/terms in this data collection template. + examples: + - value: 'experimental treatment: value' + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:experimental_factor|additional_info + rank: 7 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + filter_method: + name: filter_method + description: Type of filter used or how the sample was filtered + title: filter method + comments: + - describe the filter or provide a catalog number and manufacturer + examples: + - value: C18 + - value: Basix PES, 13-100-106 FisherSci + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:filter_type + rank: 6 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + isotope_exposure: + name: isotope_exposure + description: List isotope exposure or addition applied to your sample. + title: isotope exposure/addition + todos: + - Can we make the H218O correctly super and subscripted? + comments: + - This is required when your experimental design includes the use of isotopically labeled compounds + examples: + - value: 13C glucose + - value: H218O + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:chem_administration + rank: 16 + string_serialization: '{termLabel} {[termID]}; {timestamp}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]; ([\+-]?\d{4}(?!\d{2}\b))((-?)((0[1-9]|1[0-2])(\3([12]\d|0[1-9]|3[01]))?|W([0-4]\d|5[0-2])(-?[1-7])?|(00[1-9]|0[1-9]\d|[12]\d{2}|3([0-5]\d|6[1-6])))([T\s]((([01]\d|2[0-3])((:?)[0-5]\d)?|24\:?00)([\.,]\d+(?!:))?)?(\17[0-5]\d([\.,]\d+)?)?([zZ]|([\+-])([01]\d|2[0-3]):?([0-5]\d)?)?)?)?$ + multivalued: false + micro_biomass_c_meth: + name: micro_biomass_c_meth + description: Reference or method used in determining microbial biomass carbon + title: microbial biomass carbon method + todos: + - How should we separate values? | or ;? lets be consistent + comments: + - required if "microbial_biomass_c" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:micro_biomass_meth + rank: 1004 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + micro_biomass_n_meth: + name: micro_biomass_n_meth + description: Reference or method used in determining microbial biomass nitrogen + title: microbial biomass nitrogen method + comments: + - required if "microbial_biomass_n" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(87)90052-6 + - value: https://doi.org/10.1016/0038-0717(87)90052-6 | https://www.sciencedirect.com/science/article/abs/pii/0038071787900526 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:micro_biomass_meth + rank: 1004 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + microbial_biomass_c: + name: microbial_biomass_c + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass carbon + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug C/g dry soil + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 1004 + string_serialization: '{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + multivalued: false + microbial_biomass_n: + name: microbial_biomass_n + description: The part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometer. + title: microbial biomass nitrogen + comments: + - If you provide this, correction factors used for conversion to the final units and method are required + examples: + - value: 0.05 ug N/g dry soil + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 1004 + string_serialization: '{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? \S+$ + multivalued: false + non_microb_biomass: + name: non_microb_biomass + description: Amount of biomass; should include the name for the part of biomass measured, e.g.insect, plant, total. Can include multiple measurements separated by ; + title: non-microbial biomass + examples: + - value: insect 0.23 ug; plant 1g + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:biomass|microbial_biomass + rank: 8 + string_serialization: '{text};{float} {unit}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + pattern: ^[^;\t\r\x0A\|]+;[-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)? [^;\t\r\x0A\|]+$ + multivalued: false + non_microb_biomass_method: + name: non_microb_biomass_method + description: Reference or method used in determining biomass + title: non-microbial biomass method + comments: + - required if "non-microbial biomass" is provided + examples: + - value: https://doi.org/10.1038/s41467-021-26181-3 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:microbial_biomass + rank: 9 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + org_nitro_method: + name: org_nitro_method + description: Method used for obtaining organic nitrogen + title: organic nitrogen method + comments: + - required if "org_nitro" is provided + examples: + - value: https://doi.org/10.1016/0038-0717(85)90144-0 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:org_nitro|tot_nitro_cont_meth + rank: 14 + string_serialization: '{PMID}|{DOI}|{URL}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + multivalued: false + other_treatment: + name: other_treatment + description: Other treatments applied to your samples that are not applicable to the provided fields + title: other treatments + comments: + - This is an open text field to provide any treatments that cannot be captured in the provided slots. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:additional_info + rank: 15 + string_serialization: '{text}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + multivalued: false + start_date_inc: + name: start_date_inc + description: Date the incubation was started. Only relevant for incubation samples. + title: incubation start date + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking arbitrary precision date only + comments: + - Date should be formatted as YYYY(-MM(-DD)). Ie, 2021-04-15, 2021-04 and 2021 are all acceptable. + examples: + - value: 2021-04-15, 2021-04 and 2021 are all acceptable. + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 4 + string_serialization: '{date, arbitrary precision}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^[12]\d{3}(?:(?:-(?:0[1-9]|1[0-2]))(?:-(?:0[1-9]|[12]\d|3[01]))?)?$ + multivalued: false + start_time_inc: + name: start_time_inc + description: Time the incubation was started. Only relevant for incubation samples. + title: incubation start time, GMT + notes: + - MIxS collection_date accepts (truncated) ISO8601. DH taking seconds optional time only + comments: + - 'Time should be entered as HH:MM(:SS) in GMT. See here for a converter: https://www.worldtimebuddy.com/pst-to-gmt-converter' + examples: + - value: 13:33 or 13:33:55 + from_schema: https://raw.githubusercontent.com/microbiomedata/nmdc-schema/main/src/schema/nmdc + see_also: + - MIxS:collection_date + rank: 5 + string_serialization: '{time, seconds optional}' + owner: Biosample + domain_of: + - Biosample + slot_group: mixs_inspired_section + range: string + recommended: true + pattern: ^([01]?\d|2[0-3]|24(?=:00?:00?$)):([0-5]\d)(:([0-5]\d))?$ + multivalued: false + DhInterface: + name: DhInterface + description: One DataHarmonizer interface, for the specified combination of a checklist, enviornmental_package, and various standards, user facilities or analysis types + title: Dh Root Interface + from_schema: https://example.com/nmdc_submission_schema + slot_usage: [] + SampleData: + name: SampleData + description: represents data produced by the DataHarmonizer tabs of the submission portal + title: SampleData + from_schema: https://example.com/nmdc_submission_schema + slots: + - air_data + - biofilm_data + - built_env_data + - host_associated_data + - plant_associated_data + - sediment_data + - soil_data + - wastewater_sludge_data + - water_data + - emsl_data + - jgi_mg_data + - jgi_mt_data + tree_root: true + slot_usage: [] + NamedThing: + name: NamedThing + description: a databased entity or concept/class + from_schema: https://example.com/nmdc_submission_schema + abstract: true + slots: + - id + - name + - description + - alternative_identifiers + slot_usage: [] +source_file: local/with_modifications.yaml.raw